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- Resources: tool list, file formats & more
- Scott's list of linux one-liners
- Example BWA alignment script
- Exercises
Misc
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Notes from 5/17/12:
Conventions decided on - expands for hints, formats for command prompt/code
Aaron to write .sge maker script
All qsub's will run "./commands"
All examples have to have a "commands" file.
AB/DC to tacc-ify scripts; SPHS to put up chr20 fastq's, bams, and vcf's for example.
Append GATK to diploid calling.
Daechan original\ shell scripting page