Files in abruyneel/AlleleProfileR
Genome editing strategy agnostic variant identification and profiling tool
.Rbuildignore
.github/ISSUE_TEMPLATE/bug_report.md
.github/ISSUE_TEMPLATE/custom.md
.github/ISSUE_TEMPLATE/feature_request.md
.gitignore
AlleleProfileR.Rproj
DESCRIPTION
NAMESPACE
R/RcppExports.R
R/functions_bioinformatics.R
R/functions_main.R
R/zzz.R
README.md
man/AlleleProfileR.Rd
man/AlleleProfileR.alternatereference.Rd
man/AlleleProfileR.bam.Rd
man/AlleleProfileR.batch.Rd
man/AlleleProfileR.batch.recompute.Rd
man/AlleleProfileR.batch.summary.Rd
man/AlleleProfileR.binreads.Rd
man/AlleleProfileR.cryptic.Rd
man/AlleleProfileR.determine.variants.Rd
man/AlleleProfileR.execute.Rd
man/AlleleProfileR.getreads.Rd
man/AlleleProfileR.map.Rd
man/AlleleProfileR.merge.Rd
man/AlleleProfileR.parsecodingframe.Rd
man/AlleleProfileR.parseleadseq.Rd
man/AlleleProfileR.parsetrailseq.Rd
man/AlleleProfileR.plot.Rd
man/AlleleProfileR.plot.alignment.Rd
man/AlleleProfileR.plot.mutationtypes.Rd
man/AlleleProfileR.plot.readdept.Rd
man/AlleleProfileR.plot.seqlogo.Rd
man/AlleleProfileR.preprocess.Rd
man/AlleleProfileR.qc.Rd
man/AlleleProfileR.qc.simple.Rd
man/AlleleProfileR.read.folders.Rd
man/AlleleProfileR.sample.distribution.Rd
man/AlleleProfileR.sample.distribution.boolean.Rd
man/AlleleProfileR.setup.Rd
man/AlleleProfileR.simulate.Rd
man/AlleleProfileR.summary.profiled.alleles.Rd
src/RcppExports.cpp
src/bioio.h
src/cfunctions.cpp
src/chelper.cpp
src/chelper.h
src/cplot.cpp
tests/testthat.R
tests/testthat/files/config/example_genes.csv
tests/testthat/files/index/alternate.bam
tests/testthat/files/index/alternate.fastq
tests/testthat/files/index/frag.fa
tests/testthat/files/index/frag.fa.fai
tests/testthat/files/input/embryo01/embryo01.bam
tests/testthat/files/input/embryo03/embryo03.bam
tests/testthat/files/input/embryo04/embryo04.bam
tests/testthat/files/input/embryo07/embryo07.bam
tests/testthat/files/output/empty
tests/testthat/test_batch.R
tests/testthat/test_bioio.R
tests/testthat/test_chim.R
tests/testthat/test_hdr.R
tests/testthat/test_profile.R
