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sr320 / paper-pano-go

Draft manuscript describing Panopea gonad transcriptome
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access to edit methods section #19

Closed paolabatta closed 8 years ago

paolabatta commented 8 years ago

Hello:

I was trying to update the SNP section in the methods and I couldn't edit it, it said i need it to pull request so it would be great if I can get some sort of contributor access to start adding things to the methods section. I plan on working on Steve suggestions: One good place to start with SNPs is to take SAM file from Trinity assembly - https://github.com/sr320/paper-pano-go/wiki/Raw-Data#trinity-output and use Samtools to create VCF file. See http://www.htslib.org/doc/samtools.html however I dont know how to get samtools to work How can I download SAMtools into Git hub? how can I get access to be a writter in the github repository

sr320 commented 8 years ago

I have added you as a collaborator so you should be able to directly edit now.

sr320 commented 8 years ago

Re samtools, you would need to download on you Mac and run at the command-line http://www.htslib.org/

The other option would be to run samtools in Cyverse (formerly IPlant)