User: erica

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erica10
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Posts by erica

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Comment: C: kissplice SNP output and kissDE runtime
... Thank you Clara. I will try and install the new Bioconductor version of kissDE, and filter the kissplice output to drop the number of SNPs to a more manageable size. Will let you know how things run. Best regards, Erica. ...
written 12 weeks ago by erica10
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Comment: C: kissplice SNP output and kissDE runtime
... Thanks for the quick response, and the helpful suggestion. Some help with the script would be fantastic - as I have 3 conditions, I would be concerned that removing all SNPs with <10 counts in at least one individual might remove instances of differential expression between two conditions? Best ...
written 12 weeks ago by erica10
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kissplice SNP output and kissDE runtime
... Hi All, I'm working through the kissplice TWAS pipeline to identify condition-specific SNPs among 3 phenotypes in a wild fish species. Its quite a large dataset, with 4 or 5 replicates per phenotype and 10M paired reads per replicate. Using default parameters and the --experimental algorithm (comma ...
R kissde rna-seq snp kissplice written 12 weeks ago by erica10 • updated 12 weeks ago by clara.benoitp10

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