Mercurial > repos > brasset_jensen > srnapipe

comparison bin/sRNAPipe.pl @ 66:ff36e76d696a draft

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planemo upload for repository https://github.com/GReD-Clermont/sRNAPipe/ commit 42877e3bba93278af4319cee455e189712cc85c3
author brasset_jensen
date Wed, 30 Jan 2019 06:26:32 -0500
parents 967512924317
children
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65:0e9adbd82bb4 66:ff36e76d696a
276 } else { 276 } else {
277 print "sRNAPipe version $sRNAPipe::VERSION 277 print "sRNAPipe version $sRNAPipe::VERSION
278 278
279 Usage: 279 Usage:
280 280
281 sRNAPipe --fastq <fastq file 1> --fastq_n <name 1> [--fastq <fastq file 2> --fastq_n <name 2> --fastq <fastq file 3> -- fastq_n <name 3> ...] --ref <reference genome> [--build_index] --transcripts <transcripts> [--build_transcripts] --TE <transposable elements> [--build_TE] --miRNAs <miRNAs> [--build_miRNAs] --snRNAs <snRNAs> [--build_snRNAs] --rRNAs <rRNAs> [--build_rRNAs] --tRNAs <tRNAs> [--buid_tRNAs] [options] 281 sRNAPipe.pl --fastq <fastq file 1> --fastq_n <name 1> [--fastq <fastq file 2> --fastq_n <name 2> --fastq <fastq file 3> -- fastq_n <name 3> ...] --ref <reference genome> [--build_index] --transcripts <transcripts> [--build_transcripts] --TE <transposable elements> [--build_TE] --miRNAs <miRNAs> [--build_miRNAs] --snRNAs <snRNAs> [--build_snRNAs] --rRNAs <rRNAs> [--build_rRNAs] --tRNAs <tRNAs> [--buid_tRNAs] [options]
282 282
283 Arguments: 283 Arguments:
284 --fastq <fastq file>\t\tFastq file to process 284 --fastq <fastq file>\t\tFastq file to process
285 --fastq_n <name>\t\tName of the content to process 285 --fastq_n <name>\t\tName of the content to process
286 --ref <reference>\t\tFasta file containing the reference genome 286 --ref <reference>\t\tFasta file containing the reference genome