Search multiple compressed gzip'ed files

zjshi / gt-pro

MIT License

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Search multiple compressed gzip'ed files #3

Closed snayfach closed 4 years ago

snayfach commented 5 years ago

Would be nice to run the tool like this for compressed FASTQ files with paired end reads: gt_pro -d sckmerdb_sp974.bin file_1.fq.gz file_2.fq.gz

zjshi commented 5 years ago

decompressing gzip file probably overlaps gzip binary which basically universal in unix-like system, but it would be cool to add a code block to support merging genotype counts from paired end sequencing files. I wasn't quite sure the best interface for this for now, but I would be happy to add it soon

boris-dimitrov commented 5 years ago

https://github.com/zjshi/gt-pro2.0/pull/26 handles the compressed fastq aspect