LUYAO REN
6 years ago
2 changed files with 3 additions and 1 deletions
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README.md
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| Generate genome index files: | Generate genome index files: | ||||
| The STAR you use | |||||
| ```bash | ```bash | ||||
| genomeDir=/path/to/GRCh38 | genomeDir=/path/to/GRCh38 | ||||
| mkdir $genomeDir | mkdir $genomeDir |
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tasks/indexBam.wdl
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| command <<< | command <<< | ||||
| set -o pipefail | set -o pipefail | ||||
| set -e | set -e | ||||
| samtools index ${sorted_bam} | |||||
| /opt/conda/bin/samtools index ${sorted_bam} | |||||
| >>> | >>> | ||||
| runtime { | runtime { |
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