Files in MagpiePKU/EpiTrace
Cell age and lineage inference from single cell ATAC data
.gitignore
.readthedocs.yaml
DESCRIPTION
LICENSE
NAMESPACE
R/EpiTrace.R
README.md
data/G4_regions/G4_ce11_G4H_score_1.2_region.bed.gz
data/G4_regions/G4_ce11_G4H_score_1.2_region.bed.gz.tbi
data/G4_regions/G4_dm6_from_GSE110582_region.bed.gz
data/G4_regions/G4_dm6_from_GSE110582_region.bed.gz.tbi
data/G4_regions/G4_drerio10_G4H_score_1.5_region.bed.gz
data/G4_regions/G4_drerio10_G4H_score_1.5_region.bed.gz.tbi
data/G4_regions/G4_hg19_G4H_score1.52_from_GSE187007_region.bed.gz
data/G4_regions/G4_hg19_G4H_score1.52_from_GSE187007_region.bed.gz.tbi
data/G4_regions/G4_hg19_G4H_score2_from_GSE187007_region.bed.gz
data/G4_regions/G4_hg19_G4H_score2_from_GSE187007_region.bed.gz.tbi
data/G4_regions/G4_mm10_G4H_score_1.5_region.bed.gz
data/G4_regions/G4_mm10_G4H_score_1.5_region.bed.gz.tbi
data/G4_regions/G4_sc3_G4H_score_1.2_region.bed.gz
data/G4_regions/G4_sc3_G4H_score_1.2_region.bed.gz.tbi
data/clock_gr_list.RData
data/clock_gr_list.old.RData
data/clock_gr_list.rds
data/clock_gr_list_original_hg19.rds
data/fly_clock_mapped_human_TSS_ortholog_to_dmel_droMel6.rds
data/hematopoiesis.2018.RData
data/mm285_design_clock347_gr.rds
data/mouse_clock_lifted_human_to_mouse_mm10.rds
data/mouse_clock_mm285_design_clock347_mm10.rds
data/zebrafish_clock_lifted_human_to_fish_denRio10.rds
data/zebrafish_clock_lifted_mouse_to_fish_denRio10.rds
docs/AssociationOfPeaksToAge.rst
docs/Bulk_ATAC.rst
docs/EpiTraceAge.rst
docs/EpiTraceAge_Convergence.rst
docs/EpiTrace_prepare_object.rst
docs/Init_Matrix.rst
docs/Init_Peakset.rst
docs/MSscATAC.rst
docs/Makefile
docs/RunEpiTraceAge.rst
docs/RunEpiTracePhylogeny.rst
docs/_static/CiPSCscATAC.svg
docs/_static/Cortex.svg
docs/_static/DMscATAC.svg
docs/_static/DecomposeVector.svg
docs/_static/EpiTraceIterAlgorithm.svg
docs/_static/MS_different_Clock_overlap_immune_loci.png
docs/_static/MS_different_Clock_overlap_immune_loci.svg
docs/_static/Phylogeny_BULK_ATAC.svg
docs/_static/custom.css
docs/_static/mouseLCMV_T_Cell_Exhaustion_and_age.svg
docs/_static/mouseLCMV_aging_coef_differentClock.svg
docs/_static/mouseLCMV_compareCellAge_differentClock.svg
docs/_static/mtscATAC.svg
docs/about.rst
docs/conf.py
docs/index.rst
docs/installation.rst
docs/make.bat
docs/mtscATAC_CD34.rst
docs/references.bib
docs/references.rst
docs/release_notes.rst
docs/requirements.txt
docs/scATAC_cIPSC.rst
docs/scATAC_drosophila.rst
docs/simple_use.rst
docs/tempbib.txt
docs/tutorial_overview.rst
docs/using_notes.rst
man/hello.Rd
