Files in gimelbrantlab/ASE
.Rhistory
.gitignore
ASE.Rproj
ASEReadsCounterstar_QCumber_flowchart.svg
DESCRIPTION
LICENSE
NAMESPACE
R/ASE_functions.R
R/DownstreamASE.R
R/PerformAIAnalysis_CC.v0.3.R
R/counts_to_snp_genes.R
README.md
man/CountsToAI.Rd
man/CreateDeltaAIForAPairRepsDF.Rd
man/CreateDeltaAIPairwiseDF.Rd
man/CreateMergedDeltaAIPairwiseDF.Rd
man/CreateObservedQuartilesDF.Rd
man/FitLmIntercept.Rd
man/GetGatkPipelineSNPTabs.Rd
man/GetGatkPipelineTabs.Rd
man/MeanCoverage.Rd
man/NumToDoulbledigitChar.Rd
markdown/Allelic_counts.html
markdown/Allelic_counts.md
markdown/CC_test_102030mln.Rmd
markdown/CC_test_102030mln.nb.html
markdown/GenomePreparation.md
markdown/manual.Rmd
markdown/manual.md
markdown/manual_5aza.md
markdown/manual_full_long.Rmd
markdown/manual_upd.html
markdown/pipeline_alignment.pdf
markdown/pipeline_alignment.png
markdown/pipeline_alignment2.png
markdown/pipeline_scheme.png
pipeline.pdf
plot_figures/GTEx.R
plot_figures/benchmarkPlots.R
plot_figures/binomial.Rmd
plot_figures/figs_for_presentation.R
plot_figures/paper_Fig4.Rmd
plot_figures/paper_Figure1.R
plot_figures/paper_Figure3.R
plot_figures/paper_Figure3_add.R
plot_figures/paper_Figure4.R
plot_figures/paper_Venn.R
plot_figures/presentation_plot_figures.Rmd
plot_figures/takedata30mln.R
plot_figures/utilPlots.R
python/allelecounter.py
python/alleleseq_merge_stream_v2.py
python/prepare_RNAseq.py
python/prepare_reference.py
sh/genome_and_files_preparation.sh
sh/getASE.sh
sh/mln_subbamming.v1.sh
sh/prepare_reference.sh
sh/test_run_o2.sh
