Files in bambu

Reference-guided isoform reconstruction and quantification for long read RNA-Seq data

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NEWS

NAMESPACE

DESCRIPTION

README.md tests/testthat.R tests/testthat/test_readWrite.R tests/testthat/test_plotBambu.R tests/testthat/test_prepareAnnotations.R tests/testthat/test_isore.R tests/testthat/test_bambu.R tests/testthat/test_transcriptToGeneExpression.R

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docs/reference/prepareAnnotations.html

docs/reference/bambu.html

docs/reference/readFromGTF.html

docs/reference/plot.bambu.html

docs/reference/writeToGTF.html

docs/reference/transcriptToGeneExpression.html

docs/reference/writeBambuOutput.html

docs/reference/index.html

docs/reference/prepareAnnotationsFromGTF.html

docs/reference/SEtoGTF.html

src/Makevars

src/em.cpp

src/Makevars.win

src/RcppExports.cpp

R/annotationFunctions.R R/plotBambu.R R/RcppExports.R R/utility_annotation_functions.R R/utility_bambu_functions.R R/utility_rcContruct_functions.R R/utility_spliceHelper_functions.R R/bambu.R R/prepareBam.R

R/sysdata.rda

R/readWrite.R R/utiltiy_quant_functions.R R/globals.R R/utility_discovery_functions.R R/utility_general_functions.R R/utility_plot_functions.R R/utility_junctionCorrection_functions.R R/transcriptToGeneExpression.R man/writeBambuOutput.Rd man/bambu.Rd man/writeToGTF.Rd man/plotBambu.Rd man/readFromGTF.Rd man/transcriptToGeneExpression.Rd man/prepareAnnotations.Rd

inst/citation

inst/extdata/seIsoReCombined_SGNex_A549_directRNA_replicate5_run1_chr9_1_1000000.rds

inst/extdata/seReadClassStranded_SGNex_A549_directRNA_replicate5_run1_chr9_1_1000000.rds

inst/extdata/annotationGranges_txdbGrch38_91_chr9_1_1000000.rds

inst/extdata/seOutputCombined_SGNex_A549_directRNA_replicate5_run1_chr9_1_1000000.rds

inst/extdata/extendedAnnotationGranges_txdbGrch38_91_chr9_1_1000000.rds

inst/extdata/seIsoReRef_SGNex_A549_directRNA_replicate5_run1_chr9_1_1000000.rds

inst/extdata/Homo_sapiens.GRCh38.91_chr9_1_1000000.gtf

inst/extdata/Homo_sapiens.GRCh38.dna_sm.primary_assembly_chr9_1_1000000.fa.fai

inst/extdata/seOutput_SGNex_A549_directRNA_replicate5_run1_chr9_1_1000000.rds

inst/extdata/readGrgList_SGNex_A549_directRNA_replicate5_run1_chr9_1_1000000.rds

inst/extdata/SGNex_A549_directRNA_replicate5_run1_chr9_1_1000000.bam

inst/extdata/SGNex_A549_directRNA_replicate5_run1_chr9_1_1000000.bam.bai

inst/extdata/Homo_sapiens.GRCh38.91.annotations-txdb_chr9_1_1000000.sqlite

inst/extdata/seReadClassUnstranded_SGNex_A549_directRNA_replicate5_run1_chr9_1_1000000.rds

inst/extdata/seOutputCombinedExtended_SGNex_A549_directRNA_replicate5_run1_chr9_1_1000000.rds

inst/extdata/seReadClassBS_Stranded_SGNex_A549_directRNA_replicate5_run1_chr9_1_1000000.rds

inst/extdata/Homo_sapiens.GRCh38.dna_sm.primary_assembly_chr9_1_1000000.fa

inst/extdata/seOutputExtended_SGNex_A549_directRNA_replicate5_run1_chr9_1_1000000.rds

inst/extdata/seReadClass_SGNex_A549_directRNA_replicate5_run1_chr9_1_1000000.rds

inst/doc/bambu.html

inst/doc/bambu.R inst/doc/bambu.Rmd data-raw/DATASET.R

build/vignette.rds

vignettes/bambu.Rmd

bambu documentation built on Nov. 12, 2020, 2:01 a.m.