{"push_id":733668815,"size":2,"distinct_size":2,"ref":"refs/heads/master","head":"9360fea0f785931faa040f75fc1afe11775bcf5a","before":"f8c533e2b768acc1ff5cc7bd13817922fe223155","commits":[{"sha":"4845df5474d653ce19487c0d9191f357419b610f","author":{"email":"6e6ab5ea9cb59fe7c35d2a1fc74443577eb60635@gmail.com","name":"Anurag Priyam"},"message":"Rework.\n\nSquash blat and chain tasks into one, liftover and qa into one, and accept\noptions through a YAML file. The end interface now just is setup and run.\n\nAlso, pass all.sorted.chn to chainNet instead of all.chn and use --ungroup\noption and remove --tempdir option for GNU parallel.\n\nSigned-off-by: Anurag Priyam <anurag08priyam@gmail.com>","distinct":true,"url":"https://api.github.com/repos/yeban/flo/commits/4845df5474d653ce19487c0d9191f357419b610f"},{"sha":"9360fea0f785931faa040f75fc1afe11775bcf5a","author":{"email":"6e6ab5ea9cb59fe7c35d2a1fc74443577eb60635@gmail.com","name":"Anurag Priyam"},"message":"Revise & import scripts I wrote to lift NCBI fire ant annotations from G to H.\n\nGood to have them about in the repo for reference. These are scripts to get all\nmRNA subset and longest mRNA subset of NCBI annotations, and a variant of both\nto get the mRNA with CDS annotations only. Then there are scripts to remove\nannotations on mitochondrial genome from the GFF and to trim NCBI seqids in the\nFASTA file down to accession numbers.\n\nqa.rb is to compare lifted to original annotations by BLASTing resulting CDS to\noriginal. Pipeline does a string comparison using GNU comm and only tells exact\nannotations. Whereas by tweaking qa.rb we can also tell inexact but good ones -\nfor example, length within 15bp and coverage > 95%.\n\nSigned-off-by: Anurag Priyam <anurag08priyam@gmail.com>","distinct":true,"url":"https://api.github.com/repos/yeban/flo/commits/9360fea0f785931faa040f75fc1afe11775bcf5a"}]}