Files in SICtools

Find SNV/Indel differences between two bam files with near relationship

.BBSoptions

NEWS

NAMESPACE

DESCRIPTION

build/vignette.rds

src/bam.c

src/sample.h

src/razf.c

src/bam2bcf.h

src/bam_mate.c

src/bam2bcf.c

src/kprobaln.c

src/bgzf.c

src/bam_stat.c

src/kseq.h

src/bam_cat.c

src/faidx.c

src/bam_index.c

src/faidx.h

src/bam_sort.c

src/bam_rmdupse.c

src/Makefile.mingw

src/bam_pileup.c

src/bam_color.c

src/padding.c

src/sam_header.h

src/bam_tview_html.c

src/samtools.1

src/errmod.c

src/bam2depth.c

src/COPYING

src/sam.h

src/klist.h

src/sam_view.c

src/bam_tview_curses.c

src/bgzf.h

src/bedidx.c

src/ksort.h

src/bam_tview.h

src/ChangeLog.old

src/khash.h

src/kstring.h

src/errmod.h

src/cut_target.c

src/NEWS

src/bam_md.c

src/install.libs.R

src/sam_header.c

src/AUTHORS

src/sam.c

src/bam.h

src/chk_indel.c

src/bam_tview.c

src/razip.c

src/bam_import.c

src/Makefile

src/INSTALL

src/bamtk.c

src/bam_plcmd.c

src/kaln.h

src/bam_lpileup.c

src/phase.c

src/bamshuf.c

src/bam_endian.h

src/sample.c

src/kaln.c

src/bam_aux.c

src/bgzip.c

src/razf.h

src/bam_reheader.c

src/bedcov.c

src/bam2bcf_indel.c

src/knetfile.c

src/bam_rmdup.c

src/kprobaln.h

src/kstring.c

src/knetfile.h

src/win32/zconf.h

src/win32/xcurses.h

src/win32/zlib.h

src/bcftools/call1.c

src/bcftools/vcfutils.pl

src/bcftools/mut.c

src/bcftools/bcf.c

src/bcftools/prob1.h

src/bcftools/bcf.h

src/bcftools/index.c

src/bcftools/bcf.tex

src/bcftools/kmin.h

src/bcftools/bcfutils.c

src/bcftools/em.c

src/bcftools/fet.c

src/bcftools/vcf.c

src/bcftools/kmin.c

src/bcftools/main.c

src/bcftools/prob1.c

src/bcftools/Makefile

src/bcftools/bcf2qcall.c

src/bcftools/README

src/bcftools/kfunc.c

src/misc/wgsim.c

src/misc/interpolate_sam.pl

src/misc/vcfutils.lua

src/misc/export2sam.pl

src/misc/bowtie2sam.pl

src/misc/zoom2sam.pl

src/misc/md5.h

src/misc/r2plot.lua

src/misc/wgsim_eval.pl

src/misc/sam2vcf.pl

src/misc/soap2sam.pl

src/misc/samtools.pl

src/misc/psl2sam.pl

src/misc/HmmGlocal.java

src/misc/md5.c

src/misc/Makefile

src/misc/ace2sam.c

src/misc/bamcheck.c

src/misc/novo2sam.pl

src/misc/md5fa.c

src/misc/plot-bamcheck

src/misc/varfilter.py

src/misc/maq2sam.c

src/misc/blast2sam.pl

src/examples/toy.sam

src/examples/toy.fa

src/examples/ex1.fa

src/examples/00README.txt

src/examples/calDepth.c

src/examples/chk_indel.c

src/examples/Makefile

src/examples/ex1.sam.gz

src/examples/bam2bed.c

R/indelDiff.R R/snpDiff.R R/SICtools-internal.R vignettes/SICtools.Rmd man/SICtools-package.Rd man/indelDiff.Rd man/snpDiff.Rd tests/runTests.R inst/doc/SICtools.R inst/doc/SICtools.Rmd inst/doc/SICtools.pdf

inst/extdata/example1.bam

inst/extdata/example.ref.fasta

inst/extdata/example2.bam

inst/extdata/example.ref.fasta.fai

inst/extdata/example1.bam.bai

inst/extdata/example2.bam.bai

inst/unitTests/test_indelDiff.R inst/unitTests/test_snpDiff.R inst/unitTests/runTests.R

SICtools documentation built on Nov. 8, 2020, 5:12 p.m.