Files in jaleesr/BITFAM
Bayesion Inference Transcription Factor activity Model
.Rbuildignore
.gitignore
BITFAM.Rproj
DESCRIPTION
NAMESPACE
R/.Rhistory
R/BITFAM.R
R/BITFAM_activities.R
R/BITFAM_preprocess.R
R/BITFAM_scATAC.R
R/BITFAM_weights.R
Readme.md
Readme_cache/gfm/__packages
Readme_cache/gfm/unnamed-chunk-9_e67b220134952d46b087267ecc882739.RData
Readme_cache/gfm/unnamed-chunk-9_e67b220134952d46b087267ecc882739.rdb
Readme_files/figure-gfm/Overview.png
Readme_files/figure-gfm/heatmap.png
Readme_files/figure-gfm/tsne_cell_types.png
data/example.RData
inst/extdata/human/A0A075
inst/extdata/human/ADCYAP1
inst/extdata/human/ADNP
inst/extdata/human/AEBP2
inst/extdata/human/AFF1
inst/extdata/human/AHR
inst/extdata/human/AHRR
inst/extdata/human/ALX4
inst/extdata/human/APC
inst/extdata/human/AR
inst/extdata/human/ARHGAP35
inst/extdata/human/ARID1A
inst/extdata/human/ARID1B
inst/extdata/human/ARID2
inst/extdata/human/ARID3A
inst/extdata/human/ARID3B
inst/extdata/human/ARID4B
inst/extdata/human/ARID5B
inst/extdata/human/ARNT
inst/extdata/human/ARNT2
inst/extdata/human/ARNTL
inst/extdata/human/ARNTL2
inst/extdata/human/ASCL1
inst/extdata/human/ASCL2
inst/extdata/human/ASH1L
inst/extdata/human/ATF1
inst/extdata/human/ATF2
inst/extdata/human/ATF3
inst/extdata/human/ATF4
inst/extdata/human/ATF6
inst/extdata/human/ATF7
inst/extdata/human/ATM
inst/extdata/human/ATOH1
inst/extdata/human/ATRX
inst/extdata/human/BACH1
inst/extdata/human/BACH2
inst/extdata/human/BAP1
inst/extdata/human/BARHL1
inst/extdata/human/BARX1
inst/extdata/human/BATF
inst/extdata/human/BATF3
inst/extdata/human/BBX
inst/extdata/human/BCHE
inst/extdata/human/BCL11A
inst/extdata/human/BCL11B
inst/extdata/human/BCL3
inst/extdata/human/BCL6
inst/extdata/human/BCL6B
inst/extdata/human/BCOR
inst/extdata/human/BDP1
inst/extdata/human/BHLHE40
inst/extdata/human/BHLHE41
inst/extdata/human/BMI1
inst/extdata/human/BPTF
inst/extdata/human/BRCA1
inst/extdata/human/BRD1
inst/extdata/human/BRD2
inst/extdata/human/BRD3
inst/extdata/human/BRD4
inst/extdata/human/BRD7
inst/extdata/human/BRD9
inst/extdata/human/BRF1
inst/extdata/human/BRF2
inst/extdata/human/Bibi-N
inst/extdata/human/CARM1
inst/extdata/human/CASZ1
inst/extdata/human/CAVIN1
inst/extdata/human/CBFA2T2
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inst/extdata/human/CBFB
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inst/extdata/human/CBX1
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inst/extdata/human/CBX3
inst/extdata/human/CBX5
inst/extdata/human/CBX8
inst/extdata/human/CC2D1A
inst/extdata/human/CCAR2
inst/extdata/human/CCNT2
inst/extdata/human/CDC5L
inst/extdata/human/CDK9
inst/extdata/human/CDX1
inst/extdata/human/CDX2
inst/extdata/human/CEBPA
inst/extdata/human/CEBPB
inst/extdata/human/CEBPD
inst/extdata/human/CEBPE
inst/extdata/human/CEBPG
inst/extdata/human/CEBPZ
inst/extdata/human/CHAF1A
inst/extdata/human/CHAF1B
inst/extdata/human/CHAMP1
inst/extdata/human/CHD1
inst/extdata/human/CHD2
inst/extdata/human/CHD4
inst/extdata/human/CIC
inst/extdata/human/CLOCK
inst/extdata/human/COBLL1
inst/extdata/human/CREB1
inst/extdata/human/CREB3
inst/extdata/human/CREB3L1
inst/extdata/human/CREB3L2
inst/extdata/human/CREB3L4
inst/extdata/human/CREBBP
inst/extdata/human/CREBL2
inst/extdata/human/CREM
inst/extdata/human/CRY1
inst/extdata/human/CSHL1
inst/extdata/human/CTBP1
inst/extdata/human/CTBP2
inst/extdata/human/CTCF
inst/extdata/human/CTCFL
inst/extdata/human/CTNNB1
inst/extdata/human/CUL4A
inst/extdata/human/CUX1
inst/extdata/human/DBP
inst/extdata/human/DDIT3
inst/extdata/human/DDX21
inst/extdata/human/DEAF1
inst/extdata/human/DEK
inst/extdata/human/DIDO1
inst/extdata/human/DLX1
inst/extdata/human/DLX2
inst/extdata/human/DLX4
inst/extdata/human/DLX6
inst/extdata/human/DMAP1
inst/extdata/human/DNMT1
inst/extdata/human/DPF2
inst/extdata/human/DRAP1
inst/extdata/human/DROSHA
inst/extdata/human/E2F1
inst/extdata/human/E2F2
inst/extdata/human/E2F3
inst/extdata/human/E2F4
inst/extdata/human/E2F5
inst/extdata/human/E2F6
inst/extdata/human/E2F7
inst/extdata/human/E2F8
inst/extdata/human/E4F1
inst/extdata/human/EBF3
inst/extdata/human/EBP
inst/extdata/human/EED
inst/extdata/human/EGR1
inst/extdata/human/EGR2
inst/extdata/human/EGR3
inst/extdata/human/EHMT2
inst/extdata/human/ELF1
inst/extdata/human/ELF2
inst/extdata/human/ELF3
inst/extdata/human/ELF4
inst/extdata/human/ELK1
inst/extdata/human/ELK4
inst/extdata/human/ELL2
inst/extdata/human/EMSY
inst/extdata/human/EMX1
inst/extdata/human/EOMES
inst/extdata/human/EP300
inst/extdata/human/EP400
inst/extdata/human/EPAS1
inst/extdata/human/ERCC6
inst/extdata/human/ERCC8
inst/extdata/human/ERF
inst/extdata/human/ERG
inst/extdata/human/ESR1
inst/extdata/human/ESR2
inst/extdata/human/ESRRA
inst/extdata/human/ETS1
inst/extdata/human/ETS2
inst/extdata/human/ETV1
inst/extdata/human/ETV4
inst/extdata/human/ETV5
inst/extdata/human/ETV6
inst/extdata/human/EVX1
inst/extdata/human/EWSR1
inst/extdata/human/EZH2
inst/extdata/human/F10
inst/extdata/human/FEV
inst/extdata/human/FEZF1
inst/extdata/human/FIP1L1
inst/extdata/human/FLI1
inst/extdata/human/FOS
inst/extdata/human/FOSB
inst/extdata/human/FOSL1
inst/extdata/human/FOSL2
inst/extdata/human/FOXA1
inst/extdata/human/FOXA3
inst/extdata/human/FOXC1
inst/extdata/human/FOXD2
inst/extdata/human/FOXF1
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inst/extdata/human/FOXG1
inst/extdata/human/FOXH1
inst/extdata/human/FOXK1
inst/extdata/human/FOXK2
inst/extdata/human/FOXM1
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inst/extdata/human/FOXO1
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inst/extdata/human/FOXP1
inst/extdata/human/FOXP2
inst/extdata/human/FOXP3
inst/extdata/human/FOXQ1
inst/extdata/human/FOXR2
inst/extdata/human/FUS
inst/extdata/human/FXR1
inst/extdata/human/FXR2
inst/extdata/human/GABPA
inst/extdata/human/GABPB1
inst/extdata/human/GATA1
inst/extdata/human/GATA2
inst/extdata/human/GATA3
inst/extdata/human/GATA4
inst/extdata/human/GATA6
inst/extdata/human/GATAD1
inst/extdata/human/GATAD2A
inst/extdata/human/GATAD2B
inst/extdata/human/GFI1
inst/extdata/human/GFI1B
inst/extdata/human/GLI1
inst/extdata/human/GLI2
inst/extdata/human/GLI3
inst/extdata/human/GLI4
inst/extdata/human/GLIS1
inst/extdata/human/GLIS2
inst/extdata/human/GLIS3
inst/extdata/human/GRHL2
inst/extdata/human/GRHL3
inst/extdata/human/GTF2A2
inst/extdata/human/GTF2B
inst/extdata/human/GTF2E2
inst/extdata/human/GTF2F1
inst/extdata/human/GTF3A
inst/extdata/human/GTF3C2
inst/extdata/human/GZF1
inst/extdata/human/H2AFZ
inst/extdata/human/HAND1
inst/extdata/human/HAND2
inst/extdata/human/HBP1
inst/extdata/human/HBZ
inst/extdata/human/HCFC1
inst/extdata/human/HDAC1
inst/extdata/human/HDAC2
inst/extdata/human/HDAC3
inst/extdata/human/HDAC8
inst/extdata/human/HDGF
inst/extdata/human/HES1
inst/extdata/human/HES4
inst/extdata/human/HES5
inst/extdata/human/HES7
inst/extdata/human/HEYL
inst/extdata/human/HHEX
inst/extdata/human/HIC1
inst/extdata/human/HIC2
inst/extdata/human/HIF1A
inst/extdata/human/HINFP
inst/extdata/human/HIRA
inst/extdata/human/HIVEP1
inst/extdata/human/HIVEP3
inst/extdata/human/HLF
inst/extdata/human/HMBOX1
inst/extdata/human/HMCES
inst/extdata/human/HMG20A
inst/extdata/human/HMGA1
inst/extdata/human/HMGA2
inst/extdata/human/HMGB1
inst/extdata/human/HMGB2
inst/extdata/human/HMGN3
inst/extdata/human/HNF1A
inst/extdata/human/HNF1B
inst/extdata/human/HNF4A
inst/extdata/human/HNF4G
inst/extdata/human/HNRNPH1
inst/extdata/human/HNRNPK
inst/extdata/human/HNRNPL
inst/extdata/human/HNRNPLL
inst/extdata/human/HNRNPUL1
inst/extdata/human/HOMEZ
inst/extdata/human/HOXA1
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inst/extdata/human/HOXA13
inst/extdata/human/HOXA2
inst/extdata/human/HOXA4
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inst/extdata/human/HOXC9
inst/extdata/human/HOXD1
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inst/extdata/human/HOXD4
inst/extdata/human/HSF1
inst/extdata/human/HSF2
inst/extdata/human/ID1
inst/extdata/human/ID2
inst/extdata/human/ID3
inst/extdata/human/ID4
inst/extdata/human/IKZF1
inst/extdata/human/IKZF5
inst/extdata/human/ILF3
inst/extdata/human/ILK
inst/extdata/human/INSM2
inst/extdata/human/INTS11
inst/extdata/human/IRF1
inst/extdata/human/IRF2
inst/extdata/human/IRF3
inst/extdata/human/IRF4
inst/extdata/human/IRF5
inst/extdata/human/IRF8
inst/extdata/human/IRF9
inst/extdata/human/IRX2
inst/extdata/human/IRX3
inst/extdata/human/IRX5
inst/extdata/human/ISL1
inst/extdata/human/ISL2
inst/extdata/human/JARID2
inst/extdata/human/JDP2
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inst/extdata/human/KDM1A
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inst/extdata/human/KLF3
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inst/extdata/human/KMT2A
inst/extdata/human/KMT2C
inst/extdata/human/KMT2D
inst/extdata/human/L3MBTL2
inst/extdata/human/L3MBTL4
inst/extdata/human/LAMTOR5
inst/extdata/human/LCORL
inst/extdata/human/LDB1
inst/extdata/human/LEO1
inst/extdata/human/LHX2
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inst/extdata/human/LYL1
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inst/extdata/human/MAFG
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inst/extdata/human/MAZ
inst/extdata/human/MBD4
inst/extdata/human/MBL2
inst/extdata/human/MCM2
inst/extdata/human/MCM3
inst/extdata/human/MCM5
inst/extdata/human/MCM7
inst/extdata/human/MCRS1
inst/extdata/human/MDM2
inst/extdata/human/MECOM
inst/extdata/human/MED12
inst/extdata/human/MEF2A
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inst/extdata/human/MEF2C
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inst/extdata/human/MEIS1
inst/extdata/human/MEIS2
inst/extdata/human/MEN1
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inst/extdata/human/METTL3
inst/extdata/human/MGA
inst/extdata/human/MIER1
inst/extdata/human/MIER2
inst/extdata/human/MIER3
inst/extdata/human/MITF
inst/extdata/human/MIXL1
inst/extdata/human/MLLT1
inst/extdata/human/MNT
inst/extdata/human/MNX1
inst/extdata/human/MPHOSPH8
inst/extdata/human/MSC
inst/extdata/human/MSX1
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inst/extdata/human/MTA1
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inst/extdata/human/MTA3
inst/extdata/human/MUC22
inst/extdata/human/MXD1
inst/extdata/human/MXD3
inst/extdata/human/MXD4
inst/extdata/human/MXI1
inst/extdata/human/MYB
inst/extdata/human/MYBL1
inst/extdata/human/MYBL2
inst/extdata/human/MYC
inst/extdata/human/MYCN
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inst/extdata/human/MYNN
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inst/extdata/human/NAB2
inst/extdata/human/NANOG
inst/extdata/human/NBN
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inst/extdata/human/NFIA
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inst/extdata/human/NRF1
inst/extdata/human/NSD2
inst/extdata/human/NUP153
inst/extdata/human/NUP98
inst/extdata/human/OGG1
inst/extdata/human/ONECUT2
inst/extdata/human/OSR2
inst/extdata/human/OTX1
inst/extdata/human/OTX2
inst/extdata/human/OVOL2
inst/extdata/human/OVOL3
inst/extdata/human/PAF1
inst/extdata/human/PATZ1
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inst/extdata/human/PAX5
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inst/extdata/human/PAX8
inst/extdata/human/PBX1
inst/extdata/human/PBX2
inst/extdata/human/PBX3
inst/extdata/human/PBX4
inst/extdata/human/PCBP1
inst/extdata/human/PCBP2
inst/extdata/human/PCGF2
inst/extdata/human/PDX1
inst/extdata/human/PEX2
inst/extdata/human/PGR
inst/extdata/human/PHB2
inst/extdata/human/PHF20
inst/extdata/human/PHF21A
inst/extdata/human/PHF5A
inst/extdata/human/PHOX2B
inst/extdata/human/PITX1
inst/extdata/human/PITX3
inst/extdata/human/PKNOX1
inst/extdata/human/PLAG1
inst/extdata/human/PLRG1
inst/extdata/human/PML
inst/extdata/human/POU2F1
inst/extdata/human/POU2F2
inst/extdata/human/POU3F2
inst/extdata/human/POU5F1
inst/extdata/human/PPARA
inst/extdata/human/PPARD
inst/extdata/human/PPARG
inst/extdata/human/PRDM1
inst/extdata/human/PRDM10
inst/extdata/human/PRDM12
inst/extdata/human/PRDM14
inst/extdata/human/PRDM6
inst/extdata/human/PRDM9
inst/extdata/human/PRMT1
inst/extdata/human/PRMT5
inst/extdata/human/PROX1
inst/extdata/human/PRPF4
inst/extdata/human/PSMB5
inst/extdata/human/PTBP1
inst/extdata/human/PTTG1
inst/extdata/human/PYGO2
inst/extdata/human/Q8IZH1
inst/extdata/human/Q9NPA5
inst/extdata/human/RAD21
inst/extdata/human/RAD51
inst/extdata/human/RARA
inst/extdata/human/RARB
inst/extdata/human/RARG
inst/extdata/human/RAX2
inst/extdata/human/RB1
inst/extdata/human/RBBP5
inst/extdata/human/RBFOX2
inst/extdata/human/RBM14
inst/extdata/human/RBM15
inst/extdata/human/RBM17
inst/extdata/human/RBM25
inst/extdata/human/RBM34
inst/extdata/human/RBM39
inst/extdata/human/RBPJ
inst/extdata/human/RCOR2
inst/extdata/human/RELA
inst/extdata/human/RELB
inst/extdata/human/REPIN1
inst/extdata/human/REST
inst/extdata/human/RFX1
inst/extdata/human/RFX2
inst/extdata/human/RFX3
inst/extdata/human/RFX5
inst/extdata/human/RFX7
inst/extdata/human/RFXANK
inst/extdata/human/RLF
inst/extdata/human/RNF2
inst/extdata/human/RORA
inst/extdata/human/RPA2
inst/extdata/human/RUNX1
inst/extdata/human/RUNX1T1
inst/extdata/human/RUNX2
inst/extdata/human/RUNX3
inst/extdata/human/RXRA
inst/extdata/human/RXRB
inst/extdata/human/SAFB
inst/extdata/human/SAFB2
inst/extdata/human/SAP130
inst/extdata/human/SAP30
inst/extdata/human/SATB1
inst/extdata/human/SCRT1
inst/extdata/human/SCRT2
inst/extdata/human/SETD1A
inst/extdata/human/SETD7
inst/extdata/human/SETDB1
inst/extdata/human/SFPQ
inst/extdata/human/SIGMAR1
inst/extdata/human/SIN3A
inst/extdata/human/SIN3B
inst/extdata/human/SIPA1
inst/extdata/human/SIRT6
inst/extdata/human/SIX1
inst/extdata/human/SIX2
inst/extdata/human/SIX5
inst/extdata/human/SKI
inst/extdata/human/SKIL
inst/extdata/human/SKP2
inst/extdata/human/SLC30A9
inst/extdata/human/SMAD1
inst/extdata/human/SMAD2
inst/extdata/human/SMAD3
inst/extdata/human/SMAD4
inst/extdata/human/SMAD5
inst/extdata/human/SMARCA1
inst/extdata/human/SMARCA2
inst/extdata/human/SMARCA4
inst/extdata/human/SMARCA5
inst/extdata/human/SMARCB1
inst/extdata/human/SMARCC1
inst/extdata/human/SMARCC2
inst/extdata/human/SMARCE1
inst/extdata/human/SMC1A
inst/extdata/human/SNAI1
inst/extdata/human/SNAI2
inst/extdata/human/SNAPC4
inst/extdata/human/SNIP1
inst/extdata/human/SNRNP70
inst/extdata/human/SOD1
inst/extdata/human/SOX10
inst/extdata/human/SOX11
inst/extdata/human/SOX15
inst/extdata/human/SOX17
inst/extdata/human/SOX2
inst/extdata/human/SOX3
inst/extdata/human/SOX4
inst/extdata/human/SOX5
inst/extdata/human/SOX6
inst/extdata/human/SOX9
inst/extdata/human/SP1
inst/extdata/human/SP140
inst/extdata/human/SP2
inst/extdata/human/SP3
inst/extdata/human/SP4
inst/extdata/human/SP5
inst/extdata/human/SP7
inst/extdata/human/SPDEF
inst/extdata/human/SPI1
inst/extdata/human/SPIB
inst/extdata/human/SRC
inst/extdata/human/SREBF1
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inst/extdata/human/SRF
inst/extdata/human/SRSF3
inst/extdata/human/SRSF4
inst/extdata/human/SRSF7
inst/extdata/human/SRSF9
inst/extdata/human/SS18
inst/extdata/human/SSRP1
inst/extdata/human/STAG1
inst/extdata/human/STAG2
inst/extdata/human/STAT1
inst/extdata/human/STAT2
inst/extdata/human/STAT3
inst/extdata/human/STAT4
inst/extdata/human/STAT5A
inst/extdata/human/STAT5B
inst/extdata/human/STAT6
inst/extdata/human/SUMO2
inst/extdata/human/SUPT20H
inst/extdata/human/SUPT5H
inst/extdata/human/SUZ12
inst/extdata/human/SYNCRIP
inst/extdata/human/TAF1
inst/extdata/human/TAF15
inst/extdata/human/TAF7
inst/extdata/human/TAF9B
inst/extdata/human/TAL1
inst/extdata/human/TARDBP
inst/extdata/human/TBL1XR1
inst/extdata/human/TBP
inst/extdata/human/TBPL1
inst/extdata/human/TBX1
inst/extdata/human/TBX2
inst/extdata/human/TBX3
inst/extdata/human/TBX5
inst/extdata/human/TBXT
inst/extdata/human/TCF12
inst/extdata/human/TCF3
inst/extdata/human/TCF4
inst/extdata/human/TCF7
inst/extdata/human/TCF7L1
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inst/extdata/human/TCOF1
inst/extdata/human/TEAD1
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inst/extdata/human/TEAD3
inst/extdata/human/TEAD4
inst/extdata/human/TET1
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inst/extdata/human/TET3
inst/extdata/human/TFAM
inst/extdata/human/TFAP2A
inst/extdata/human/TFAP2C
inst/extdata/human/TFAP4
inst/extdata/human/TFCP2
inst/extdata/human/TFDP1
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inst/extdata/human/TFE3
inst/extdata/human/TFEB
inst/extdata/human/TGIF1
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inst/extdata/human/THAP11
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inst/extdata/human/THRA
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inst/extdata/human/TLE3
inst/extdata/human/TLX1
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inst/extdata/human/TP53
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inst/extdata/human/TRIM22
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inst/extdata/human/TRIM28
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inst/extdata/human/TSHZ1
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inst/extdata/human/WRNIP1
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inst/extdata/human/YAP1
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inst/extdata/human/YY1
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inst/extdata/human/ZBED1
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inst/extdata/human/ZBTB11
inst/extdata/human/ZBTB14
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inst/extdata/human/ZBTB18
inst/extdata/human/ZBTB2
inst/extdata/human/ZBTB20
inst/extdata/human/ZBTB24
inst/extdata/human/ZBTB25
inst/extdata/human/ZBTB26
inst/extdata/human/ZBTB33
inst/extdata/human/ZBTB39
inst/extdata/human/ZBTB42
inst/extdata/human/ZBTB44
inst/extdata/human/ZBTB48
inst/extdata/human/ZBTB49
inst/extdata/human/ZBTB5
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inst/extdata/human/ZC3H11A
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inst/extdata/human/ZNF274
inst/extdata/human/ZNF280A
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inst/extdata/human/ZNF292
inst/extdata/human/ZNF3
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inst/extdata/human/ZNF316
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inst/extdata/human/ZNF318
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inst/extdata/human/ZNF335
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inst/extdata/human/ZNF362
inst/extdata/human/ZNF366
inst/extdata/human/ZNF37A
inst/extdata/human/ZNF382
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inst/extdata/human/ZNF394
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inst/extdata/human/ZNF404
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inst/extdata/human/ZNF423
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inst/extdata/human/ZNF433
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inst/extdata/human/ZNF444
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inst/extdata/human/ZNF454
inst/extdata/human/ZNF467
inst/extdata/human/ZNF473
inst/extdata/human/ZNF48
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inst/extdata/human/ZNF491
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inst/extdata/human/ZNF501
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inst/extdata/human/ZNF507
inst/extdata/human/ZNF511
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inst/extdata/human/ZNF518A
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inst/extdata/human/ZNF544
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inst/extdata/human/ZNF554
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inst/extdata/human/ZNF560
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inst/extdata/human/ZNF563
inst/extdata/human/ZNF571
inst/extdata/human/ZNF574
inst/extdata/human/ZNF577
inst/extdata/human/ZNF579
inst/extdata/human/ZNF582
inst/extdata/human/ZNF584
inst/extdata/human/ZNF585B
inst/extdata/human/ZNF589
inst/extdata/human/ZNF592
inst/extdata/human/ZNF595
inst/extdata/human/ZNF596
inst/extdata/human/ZNF597
inst/extdata/human/ZNF600
inst/extdata/human/ZNF610
inst/extdata/human/ZNF614
inst/extdata/human/ZNF618
inst/extdata/human/ZNF621
inst/extdata/human/ZNF622
inst/extdata/human/ZNF623
inst/extdata/human/ZNF626
inst/extdata/human/ZNF644
inst/extdata/human/ZNF654
inst/extdata/human/ZNF658
inst/extdata/human/ZNF660
inst/extdata/human/ZNF662
inst/extdata/human/ZNF664
inst/extdata/human/ZNF667
inst/extdata/human/ZNF669
inst/extdata/human/ZNF670
inst/extdata/human/ZNF677
inst/extdata/human/ZNF680
inst/extdata/human/ZNF687
inst/extdata/human/ZNF692
inst/extdata/human/ZNF697
inst/extdata/human/ZNF7
inst/extdata/human/ZNF704
inst/extdata/human/ZNF707
inst/extdata/human/ZNF708
inst/extdata/human/ZNF740
inst/extdata/human/ZNF747
inst/extdata/human/ZNF75A
inst/extdata/human/ZNF76
inst/extdata/human/ZNF766
inst/extdata/human/ZNF768
inst/extdata/human/ZNF770
inst/extdata/human/ZNF774
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inst/extdata/human/ZNF778
inst/extdata/human/ZNF781
inst/extdata/human/ZNF784
inst/extdata/human/ZNF785
inst/extdata/human/ZNF791
inst/extdata/human/ZNF792
inst/extdata/human/ZNF8
inst/extdata/human/ZNF816
inst/extdata/human/ZNF83
inst/extdata/human/ZNF830
inst/extdata/human/ZNF837
inst/extdata/human/ZNF84
inst/extdata/human/ZNF843
inst/extdata/human/ZNF85
inst/extdata/human/ZNF92
inst/extdata/human/ZSCAN16
inst/extdata/human/ZSCAN18
inst/extdata/human/ZSCAN2
inst/extdata/human/ZSCAN22
inst/extdata/human/ZSCAN23
inst/extdata/human/ZSCAN26
inst/extdata/human/ZSCAN29
inst/extdata/human/ZSCAN30
inst/extdata/human/ZSCAN31
inst/extdata/human/ZSCAN4
inst/extdata/human/ZSCAN5A
inst/extdata/human/ZSCAN5B
inst/extdata/human/ZSCAN5C
inst/extdata/human/ZSCAN5DP
inst/extdata/human/ZSCAN9
inst/extdata/human/ZXDB
inst/extdata/human/ZXDC
inst/extdata/human/ZZZ3
inst/extdata/human/all_TFs.txt
inst/extdata/human/p65
inst/extdata/human/stem
inst/extdata/liver_cell_type.txt
inst/extdata/mouse/AKD
inst/extdata/mouse/Ahr
inst/extdata/mouse/Aire
inst/extdata/mouse/Ar
inst/extdata/mouse/Arid1a
inst/extdata/mouse/Arid3a
inst/extdata/mouse/Arid4b
inst/extdata/mouse/Arntl
inst/extdata/mouse/Ascl1
inst/extdata/mouse/Ascl2
inst/extdata/mouse/Atf2
inst/extdata/mouse/Atf3
inst/extdata/mouse/Atf4
inst/extdata/mouse/Atf7
inst/extdata/mouse/Atoh1
inst/extdata/mouse/Atrx
inst/extdata/mouse/Bach1
inst/extdata/mouse/Bach2
inst/extdata/mouse/Barx1
inst/extdata/mouse/Batf
inst/extdata/mouse/Batf3
inst/extdata/mouse/Bcl11b
inst/extdata/mouse/Bcl3
inst/extdata/mouse/Bcl6
inst/extdata/mouse/Bhlha15
inst/extdata/mouse/Bhlhe40
inst/extdata/mouse/Bhlhe41
inst/extdata/mouse/Brd4
inst/extdata/mouse/Cat
inst/extdata/mouse/Cdx2
inst/extdata/mouse/Cebpa
inst/extdata/mouse/Cebpa_2
inst/extdata/mouse/Cebpb
inst/extdata/mouse/Cebpd
inst/extdata/mouse/Cebpe
inst/extdata/mouse/Cebpg
inst/extdata/mouse/Clock
inst/extdata/mouse/Creb1
inst/extdata/mouse/Crx
inst/extdata/mouse/Ctcf
inst/extdata/mouse/Ctcfl
inst/extdata/mouse/Cux2
inst/extdata/mouse/Cxxc1
inst/extdata/mouse/Ddit3
inst/extdata/mouse/Dlx3
inst/extdata/mouse/Dlx5
inst/extdata/mouse/Dmc1
inst/extdata/mouse/Dmrt1
inst/extdata/mouse/Dmrtb1
inst/extdata/mouse/Dnajc2
inst/extdata/mouse/Dnmt1
inst/extdata/mouse/Dux
inst/extdata/mouse/E2f1
inst/extdata/mouse/E2f3
inst/extdata/mouse/E2f4
inst/extdata/mouse/E4f1
inst/extdata/mouse/Ebf1
inst/extdata/mouse/Ebf2
inst/extdata/mouse/Eed
inst/extdata/mouse/Egr1
inst/extdata/mouse/Egr2
inst/extdata/mouse/Ehf
inst/extdata/mouse/Elf1
inst/extdata/mouse/Elf4
inst/extdata/mouse/Elf5
inst/extdata/mouse/Elk1
inst/extdata/mouse/Elk3
inst/extdata/mouse/Elk4
inst/extdata/mouse/Eomes
inst/extdata/mouse/Ep300
inst/extdata/mouse/Erg
inst/extdata/mouse/Esr1
inst/extdata/mouse/Esr2
inst/extdata/mouse/Esrra
inst/extdata/mouse/Esrrb
inst/extdata/mouse/Esrrg
inst/extdata/mouse/Ets1
inst/extdata/mouse/Ets2
inst/extdata/mouse/Etv2
inst/extdata/mouse/Etv4
inst/extdata/mouse/Etv5
inst/extdata/mouse/Etv6
inst/extdata/mouse/Ezh2
inst/extdata/mouse/Fev
inst/extdata/mouse/Fezf2
inst/extdata/mouse/Fli1
inst/extdata/mouse/Fos
inst/extdata/mouse/Fosb
inst/extdata/mouse/Fosl1
inst/extdata/mouse/Fosl2
inst/extdata/mouse/Foxa1
inst/extdata/mouse/Foxa2
inst/extdata/mouse/Foxa3
inst/extdata/mouse/Foxd3
inst/extdata/mouse/Foxf1
inst/extdata/mouse/Foxk1
inst/extdata/mouse/Foxl2
inst/extdata/mouse/Foxo1
inst/extdata/mouse/Foxo3
inst/extdata/mouse/Foxp3
inst/extdata/mouse/Gabpa
inst/extdata/mouse/Gata1
inst/extdata/mouse/Gata2
inst/extdata/mouse/Gata3
inst/extdata/mouse/Gata4
inst/extdata/mouse/Gata6
inst/extdata/mouse/Gfi1
inst/extdata/mouse/Gfi1b
inst/extdata/mouse/Gfpt1
inst/extdata/mouse/Gli1
inst/extdata/mouse/Gli2
inst/extdata/mouse/Gli3
inst/extdata/mouse/Grhl2
inst/extdata/mouse/Hand1
inst/extdata/mouse/Hand2
inst/extdata/mouse/Hes1
inst/extdata/mouse/Hes5
inst/extdata/mouse/Hey1
inst/extdata/mouse/Hey2
inst/extdata/mouse/Hhex
inst/extdata/mouse/Hif1a
inst/extdata/mouse/Hlf
inst/extdata/mouse/Hnf1b
inst/extdata/mouse/Hnf4a
inst/extdata/mouse/Hnf4g
inst/extdata/mouse/Hnrnpu
inst/extdata/mouse/Hopx
inst/extdata/mouse/Hoxa13
inst/extdata/mouse/Hoxa9
inst/extdata/mouse/Hoxb4
inst/extdata/mouse/Hoxb5
inst/extdata/mouse/Hoxc9
inst/extdata/mouse/Hoxd13
inst/extdata/mouse/Hsf1
inst/extdata/mouse/Hsf2
inst/extdata/mouse/Ikzf1
inst/extdata/mouse/Ikzf2
inst/extdata/mouse/Ikzf3
inst/extdata/mouse/Insm1
inst/extdata/mouse/Irf1
inst/extdata/mouse/Irf2
inst/extdata/mouse/Irf3
inst/extdata/mouse/Irf4
inst/extdata/mouse/Irf7
inst/extdata/mouse/Irf8
inst/extdata/mouse/Isl1
inst/extdata/mouse/Jarid2
inst/extdata/mouse/Jun
inst/extdata/mouse/Junb
inst/extdata/mouse/Jund
inst/extdata/mouse/Kat5
inst/extdata/mouse/Kdm1a
inst/extdata/mouse/Kdm2a
inst/extdata/mouse/Kdm3a
inst/extdata/mouse/Kdm5a
inst/extdata/mouse/Kdm5b
inst/extdata/mouse/Kdm5c
inst/extdata/mouse/Kdm6a
inst/extdata/mouse/Klf1
inst/extdata/mouse/Klf15
inst/extdata/mouse/Klf3
inst/extdata/mouse/Klf4
inst/extdata/mouse/Klf5
inst/extdata/mouse/Klf6
inst/extdata/mouse/Kmt2a
inst/extdata/mouse/Kmt2b
inst/extdata/mouse/Lef1
inst/extdata/mouse/Lhx2
inst/extdata/mouse/Lhx3
inst/extdata/mouse/Lhx6
inst/extdata/mouse/Lmx1b
inst/extdata/mouse/Lyl1
inst/extdata/mouse/Maf
inst/extdata/mouse/Mafa
inst/extdata/mouse/Mafb
inst/extdata/mouse/Mafb_1
inst/extdata/mouse/Maff
inst/extdata/mouse/Mafg
inst/extdata/mouse/Mafk
inst/extdata/mouse/Max
inst/extdata/mouse/Maz
inst/extdata/mouse/Med1
inst/extdata/mouse/Med12
inst/extdata/mouse/Mef2a
inst/extdata/mouse/Mef2c
inst/extdata/mouse/Mef2d
inst/extdata/mouse/Meis1
inst/extdata/mouse/Mitf
inst/extdata/mouse/Msgn1
inst/extdata/mouse/Msx1
inst/extdata/mouse/Mta2
inst/extdata/mouse/Mxi1
inst/extdata/mouse/Myb
inst/extdata/mouse/Mybl1
inst/extdata/mouse/Myc
inst/extdata/mouse/Mycn
inst/extdata/mouse/Myf5
inst/extdata/mouse/Myod1
inst/extdata/mouse/Myog
inst/extdata/mouse/Myt1l
inst/extdata/mouse/Naa10
inst/extdata/mouse/Nanog
inst/extdata/mouse/Ncoa1
inst/extdata/mouse/Ncoa2
inst/extdata/mouse/Ncoa3
inst/extdata/mouse/Ncor1
inst/extdata/mouse/Ncor2
inst/extdata/mouse/Neurod1
inst/extdata/mouse/Neurod1_2
inst/extdata/mouse/Neurod2
inst/extdata/mouse/Neurog2
inst/extdata/mouse/Nfatc1
inst/extdata/mouse/Nfatc2
inst/extdata/mouse/Nfe2
inst/extdata/mouse/Nfe2l1
inst/extdata/mouse/Nfe2l2
inst/extdata/mouse/Nfia
inst/extdata/mouse/Nfib
inst/extdata/mouse/Nfic
inst/extdata/mouse/Nfil3
inst/extdata/mouse/Nfkb1
inst/extdata/mouse/Nfya
inst/extdata/mouse/Nfyb
inst/extdata/mouse/Nfyc
inst/extdata/mouse/Nkx2-1
inst/extdata/mouse/Nkx2-2
inst/extdata/mouse/Nkx2-5
inst/extdata/mouse/Nkx3-1
inst/extdata/mouse/Nkx3-2
inst/extdata/mouse/Nkx6-1
inst/extdata/mouse/Npas3
inst/extdata/mouse/Nr0b2
inst/extdata/mouse/Nr1d1
inst/extdata/mouse/Nr1d2
inst/extdata/mouse/Nr1h2
inst/extdata/mouse/Nr1h3
inst/extdata/mouse/Nr1h4
inst/extdata/mouse/Nr1i2
inst/extdata/mouse/Nr2f2
inst/extdata/mouse/Nr3c1
inst/extdata/mouse/Nr4a1
inst/extdata/mouse/Nr5a1
inst/extdata/mouse/Nr5a2
inst/extdata/mouse/Nr6a1
inst/extdata/mouse/Nrf1
inst/extdata/mouse/Olig2
inst/extdata/mouse/Onecut1
inst/extdata/mouse/Onecut2
inst/extdata/mouse/Otx2
inst/extdata/mouse/Ovol2
inst/extdata/mouse/Pax3
inst/extdata/mouse/Pax5
inst/extdata/mouse/Pax5_1
inst/extdata/mouse/Pax5_3
inst/extdata/mouse/Pax6
inst/extdata/mouse/Pax7
inst/extdata/mouse/Pbrm1
inst/extdata/mouse/Pbx1
inst/extdata/mouse/Pdx1
inst/extdata/mouse/Pgr
inst/extdata/mouse/Phf5a
inst/extdata/mouse/Phox2a
inst/extdata/mouse/Pitx1
inst/extdata/mouse/Pknox1
inst/extdata/mouse/Pou2f1
inst/extdata/mouse/Pou3f1
inst/extdata/mouse/Pou3f2
inst/extdata/mouse/Pou3f3
inst/extdata/mouse/Pou5f1
inst/extdata/mouse/Ppara
inst/extdata/mouse/Pparg
inst/extdata/mouse/Prdm1
inst/extdata/mouse/Prdm13
inst/extdata/mouse/Prdm14
inst/extdata/mouse/Prdm15
inst/extdata/mouse/Prdm16
inst/extdata/mouse/Prdm5
inst/extdata/mouse/Prdm9
inst/extdata/mouse/Prop1
inst/extdata/mouse/Prox1
inst/extdata/mouse/Ptf1a
inst/extdata/mouse/Rad21
inst/extdata/mouse/Rara
inst/extdata/mouse/Rarb
inst/extdata/mouse/Rbpj
inst/extdata/mouse/Rbpjl
inst/extdata/mouse/Rcor1
inst/extdata/mouse/Rcor2
inst/extdata/mouse/Rel
inst/extdata/mouse/Rela
inst/extdata/mouse/Relb
inst/extdata/mouse/Rest
inst/extdata/mouse/Rfx1
inst/extdata/mouse/Rfx2
inst/extdata/mouse/Rfx3
inst/extdata/mouse/Rfx6
inst/extdata/mouse/Rora
inst/extdata/mouse/Rorc
inst/extdata/mouse/Runx1
inst/extdata/mouse/Runx2
inst/extdata/mouse/Runx3
inst/extdata/mouse/Rxra
inst/extdata/mouse/Rxrg
inst/extdata/mouse/Sall1
inst/extdata/mouse/Sall4
inst/extdata/mouse/Satb1
inst/extdata/mouse/Shox2
inst/extdata/mouse/Sim2
inst/extdata/mouse/Six2
inst/extdata/mouse/Six4
inst/extdata/mouse/Smad1
inst/extdata/mouse/Smad2
inst/extdata/mouse/Smad3
inst/extdata/mouse/Smad4
inst/extdata/mouse/Smarca5
inst/extdata/mouse/Smarcc1
inst/extdata/mouse/Smarcc2
inst/extdata/mouse/Snai1
inst/extdata/mouse/Snai2
inst/extdata/mouse/Sox10
inst/extdata/mouse/Sox11
inst/extdata/mouse/Sox17
inst/extdata/mouse/Sox2
inst/extdata/mouse/Sox3
inst/extdata/mouse/Sox4
inst/extdata/mouse/Sox5
inst/extdata/mouse/Sox6
inst/extdata/mouse/Sox9
inst/extdata/mouse/Sp1
inst/extdata/mouse/Sp5
inst/extdata/mouse/Sp7
inst/extdata/mouse/Spi1
inst/extdata/mouse/Spib
inst/extdata/mouse/Srebf1
inst/extdata/mouse/Srf
inst/extdata/mouse/Stat1
inst/extdata/mouse/Stat2
inst/extdata/mouse/Stat3
inst/extdata/mouse/Stat4
inst/extdata/mouse/Stat5a
inst/extdata/mouse/Stat5a_2
inst/extdata/mouse/Stat5b
inst/extdata/mouse/Stat6
inst/extdata/mouse/Stfa1
inst/extdata/mouse/Supt6h
inst/extdata/mouse/Suz12
inst/extdata/mouse/T
inst/extdata/mouse/Taf1
inst/extdata/mouse/Taf10
inst/extdata/mouse/Taf12
inst/extdata/mouse/Taf2
inst/extdata/mouse/Tal1
inst/extdata/mouse/Tal1_1
inst/extdata/mouse/Tal1_2
inst/extdata/mouse/Tbp
inst/extdata/mouse/Tbpl1
inst/extdata/mouse/Tbx19
inst/extdata/mouse/Tbx20
inst/extdata/mouse/Tbx21
inst/extdata/mouse/Tbx3
inst/extdata/mouse/Tbx5
inst/extdata/mouse/Tcf12
inst/extdata/mouse/Tcf3
inst/extdata/mouse/Tcf7
inst/extdata/mouse/Tcf7l1
inst/extdata/mouse/Tcf7l2
inst/extdata/mouse/Tead1
inst/extdata/mouse/Tead2
inst/extdata/mouse/Tead4
inst/extdata/mouse/Tet1
inst/extdata/mouse/Tfap2a
inst/extdata/mouse/Tfap2c
inst/extdata/mouse/Tfap4
inst/extdata/mouse/Tfcp2l1
inst/extdata/mouse/Tfe3
inst/extdata/mouse/Tgif1
inst/extdata/mouse/Thap1
inst/extdata/mouse/Thap11
inst/extdata/mouse/Thra
inst/extdata/mouse/Thrb
inst/extdata/mouse/Tlx1
inst/extdata/mouse/Tp53
inst/extdata/mouse/Trim28
inst/extdata/mouse/Twist1
inst/extdata/mouse/Ubtf
inst/extdata/mouse/Usf1
inst/extdata/mouse/Usf2
inst/extdata/mouse/Utf1
inst/extdata/mouse/Vdr
inst/extdata/mouse/Vsx2
inst/extdata/mouse/Wiz
inst/extdata/mouse/Wt1
inst/extdata/mouse/Xbp1
inst/extdata/mouse/Yy1
inst/extdata/mouse/Yy2
inst/extdata/mouse/Zbtb16
inst/extdata/mouse/Zbtb17
inst/extdata/mouse/Zbtb2
inst/extdata/mouse/Zfp217
inst/extdata/mouse/Zfp384
inst/extdata/mouse/Zfp42
inst/extdata/mouse/Zfp449
inst/extdata/mouse/Zfp57
inst/extdata/mouse/Zfx
inst/extdata/mouse/Zic1
inst/extdata/mouse/Zic2
inst/extdata/mouse/Zic3
inst/extdata/mouse/Zkscan1
inst/extdata/mouse/Znf143
inst/extdata/mouse/Znf281
inst/extdata/mouse/Znf322
inst/extdata/mouse/Znf335
inst/extdata/mouse/Znf431
inst/extdata/mouse/Znf652
inst/extdata/mouse/all_TFs.txt
man/.Rhistory
man/BITFAM.Rd
man/BITFAM_activities.Rd
man/BITFAM_preprocess.Rd
man/BITFAM_scATAC.Rd
man/BITFAM_weights.Rd
