2142d4d8e3baa85267347d7c513748b9 *DESCRIPTION
028210b72bda0ca2317cab65dc9ca752 *NAMESPACE
5779a18f89231b722239d4bd89116682 *R/adapterremoval.R
81e20c943ec20010bd0e5d0ea01e12dd *R/bowtie2.R
d3f4559c866c400375c35b1213e3a56c *R/checkUtils.R
b82e10c9d06efa878fbe845d463f5bd2 *README.md
05880127ca7c3136ca55eb61c8ff5d3c *build/vignette.rds
8a5dddca57867e7a69fa680948b33522 *inst/CITATION
aec354ca8a1ae1bb5b5cf6bf425caf77 *inst/NEWS
3d7dacefe8900e1cef2006740a28568b *inst/doc/Rbowtie2-Introduction.R
e0b65ef451f89d546bac23399e7b215c *inst/doc/Rbowtie2-Introduction.Rmd
91e421198931f83866e3d115c21eeda6 *inst/doc/Rbowtie2-Introduction.html
3d5df35bf2e97e3f9602270a77cd6b52 *inst/extdata/adrm/reads_1.fq
cedb9cf59618c2d02543fd6a273f8353 *inst/extdata/adrm/reads_2.fq
163f1b0ead6962e41a18bb2ccc5149ba *inst/extdata/bt2/reads/reads_1.fastq
a0529d01ceb200399b8d6fb703cc51f1 *inst/extdata/bt2/reads/reads_2.fastq
d9cd45a2cfd805f55eea9b7ddc76233e *inst/extdata/bt2/refs/lambda_virus.fa
5f208376b7a2e84f1cf2dab1ff43b115 *man/adapterremoval_usage.Rd
1ff7ea451948118a49c8453d0d479d7b *man/adapterremoval_version.Rd
8284d603d9f3a36cfaabd506872a9616 *man/bowtie2-build.Rd
1eb46af8bd289634c9cb38e834829bb7 *man/bowtie2.Rd
df598d78c5bb6a8ebc6d92814e5d30b2 *man/bowtie2_build_usage.Rd
a5c4e57ce6c2e0b6fbad05491a8dbd0e *man/bowtie2_samtools.Rd
ae1900933ea2b91a699c220bf06e0e17 *man/bowtie2_usage.Rd
9533adb829d04d967eae45ad977ace36 *man/bowtie2_version.Rd
1bc24338e43ed1076e9d7a013df96e25 *man/checkFileCreateable.Rd
c70b370e1589de3c8bffb543778c63ef *man/checkFileExist.Rd
0e9be1e2b7e8850d574bab33bd816f6c *man/checkIndexType.Rd
2b4fd05e933839d2c05c45e566e2b427 *man/checkPathExist.Rd
a781e9cab0dd8c145d6e1b19db6c2e58 *man/checkSamtoolsExists.Rd
c1a9b7f4fc4d3f923d743f4f01e87426 *man/dot-callbinary.Rd
e318496d17addd025a8b3740057b6ac8 *man/identify_adapters.Rd
cd80a24671351a701a5ea5775ef0979f *man/remove_adapters.Rd
b50dc192236edffa44aec195ce44fce8 *src/Makefile
dc00eaa24b7fe45d4a2276856556fb7a *src/Makefile.win
5c704105c7a287115919f856ffdd2bda *src/adapterremoval/Makefile
1407898dbf9cd0cfc5ca3c8ae6e874f4 *src/adapterremoval/Makefile.win
bb77f6720bc5d52c44be8ec52305cee9 *src/adapterremoval/adapterset.cc
8881066c2df43f0e6b6fcacd39a03a8b *src/adapterremoval/adapterset.h
7d7ef7c856dcc7fc03e6d0e68c563585 *src/adapterremoval/alignment.cc
a0b91d2c276f29663c2c95be29378806 *src/adapterremoval/alignment.h
e6fb5cd1dd537a5a40c6190d76cccc1b *src/adapterremoval/argparse.cc
b4ca7554c11213e517fad06a7d2474ab *src/adapterremoval/argparse.h
1f1d6b47d181acf27624b71941cd63eb *src/adapterremoval/commontypes.h
7c4e527c8486b106ffb9d71861104561 *src/adapterremoval/debug.cc
fa78fc9425c303cd68e95d8b3182d8d8 *src/adapterremoval/debug.h
5db5db675156189eaf403b69b6e55067 *src/adapterremoval/demultiplex.cc
ca1507e740b85ec276a113b3f4597ace *src/adapterremoval/demultiplex.h
5e9e0622a1ddeeb24e151b0377e3bd88 *src/adapterremoval/fastq.cc
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83348b4e1befae9da6742a4c5a35a291 *src/adapterremoval/fastq_io.h
040b0b3233d7fd21ab9cfbbcbfd9d302 *src/adapterremoval/linereader.cc
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dd37ab3d9e8b1cf1a04d8d698f2cc571 *src/adapterremoval/main.h
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ab2dc4d15d5310729094a574c3578e77 *src/adapterremoval/main_adapter_rm.cc
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