metagenlab / MeSS

Snakemake pipeline for simulating shotgun metagenomic samples

https://metagenlab.github.io/MeSS

MIT License

18 stars 2 forks source link

Fix taxonomic abundances #29

Closed farchaab closed 1 month ago

farchaab commented 1 month ago

Summary

PR to fix duplicated contig concatenation and other bugs

`Additions`

7ef565ca04b4173da1aad0035ac45177cceb7fd5 Adds support for symlink in input
a37a9cdbb62fc5558c6c6020c7041950b586d326 04206e1940430f1b83bc1f74190f2962e0aed450 Added paths ignore in github actions

`Changes`

a56e68fa625c0da0bb8ff4d3c59c9d3e01c6842c 091873912b456f503614bc5eca043c903873fd8a Changes index=None to index=False for pandas.to_csv
32707a27612ca80757d3f52fadd977a4ea66c00b Updates assembly_finder container version
1a0871bf28da06374fca1cf364d8a742e81ade1f Applies distributions per sample
072d05ee142e6152ddb213412f7304ef1a63731c Changes mu and sigma to floats

`Fixes`

61ab8592d383889d647a71911e72fc11ace2155e Fixes #28
1bcef6dbf97c28cd82366e42456cc035fe92c7a2 Fixes replicates
5ae2d629d1ddf5d70b8c658828fa40e77fb0966c Fixes taxa and sequence abundances in CAMI profile
2dbd7f36095a70fcff4bdfe8d3338588e45e2d90 Fixes read and base counts in coverages.tsv