annotate qa_core/sample/Input/input.xml @ 2:021864b5a0a5 tip

planemo upload
author jpayne
date Fri, 11 May 2018 10:25:14 -0400
parents dafec28bd37e
children
rev   line source
jpayne@0 1 <?xml version='1.0' encoding='UTF-8'?>
jpayne@0 2 <qaQcCoverageInput>
jpayne@0 3 <!--
jpayne@0 4 <sequenceFileName comment="passes cov, fails quality">FNW19G43_S8_L001_R1_001.fastq.gz</sequenceFileName>
jpayne@0 5 <sequenceFileName>FNW19G43_S8_L001_R2_001.fastq.gz</sequenceFileName>
jpayne@0 6 -->
jpayne@0 7
jpayne@0 8
jpayne@0 9
jpayne@0 10
jpayne@0 11
jpayne@0 12 <!-- <sequenceFileName comment="passes cov and quality">NY65357675_S20_L001_R1_001.fastq.gz</sequenceFileName>
jpayne@0 13 <sequenceFileName>NY65357675_S20_L001_R2_001.fastq.gz</sequenceFileName> -->
jpayne@0 14 <genus>Campylobacter</genus>
jpayne@0 15 <species>jejuni</species>
jpayne@0 16
jpayne@0 17
jpayne@0 18
jpayne@0 19
jpayne@0 20 <!--
jpayne@0 21 <sequenceFileName comment="small file">forward.fastq.gz</sequenceFileName>
jpayne@0 22 <sequenceFileName>reverse.fastq.gz</sequenceFileName> -->
jpayne@0 23
jpayne@0 24
jpayne@0 25
jpayne@0 26
jpayne@0 27
jpayne@0 28
jpayne@0 29
jpayne@0 30
jpayne@0 31 <sequenceFileName comment="moderate size file">forward_big.fastq.gz</sequenceFileName>
jpayne@0 32 <sequenceFileName>reverse_big.fastq.gz</sequenceFileName>
jpayne@0 33
jpayne@0 34
jpayne@0 35
jpayne@0 36 <!-- <sequenceFileName comment="454 file">roche_10000.sff</sequenceFileName> -->
jpayne@0 37
jpayne@0 38 <sequencingType>Illumina MiSeq</sequencingType>
jpayne@0 39
jpayne@0 40 <!-- <sequencingType>Roche 454</sequencingType> -->
jpayne@0 41
jpayne@0 42 <approximateGenomeSize>4500000</approximateGenomeSize>
jpayne@0 43 <coverageThreshold>20</coverageThreshold>
jpayne@0 44
jpayne@0 45 </qaQcCoverageInput>