biocore/microprot

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structural annotation pipeline for microbial genomes and metagenomes

Stars: 2
Forks: 6
Open beginner issues: 0
Indexed issues: 12

Dominant language: Python
License: BSD-3-Clause
Last GitHub push: Feb 26, 2020
Latest indexed: Sep 14, 2026
Contributing guide: No contributing guide
Code of conduct: No code of conduct
Beginner labels: No beginner labels indexed
PR merge metrics: No merged PRs in 30d

Beginner friendly Everything

Open All

12 open issues indexed

refactor the Snakemake pipeline Open

priority 1

biocore/microprot#76 · 1 assignee · Opened Dec 6, 2019
BUG: `MSA_ripe` rule fails on some non-standard amino acids Open

priority 1

biocore/microprot#75 · 1 assignee · Opened Apr 6, 2018
some records do not get propagated from log to `microprot_db` Open

bug

Difficulty 4/5 3-5 days Newbie friendliness 35/100

biocore/microprot#70 · Opened Sep 27, 2017
refactor setup.py and repo structure Open

version 3

biocore/microprot#69 · 1 assignee · Opened Sep 26, 2017
unit tests for `snakemake_helpers` Open

version 2

biocore/microprot#68 · 1 assignee · Opened Sep 26, 2017
auto build and update microprot_db and HH-suite compatible DB Open

version 3

Difficulty 5/5 Over a week Newbie friendliness 25/100

biocore/microprot#63 · Opened Jul 19, 2017
keep output files in ffindex format Open

version 3

biocore/microprot#62 · 2 comments · 2 assignees · Opened Jul 10, 2017
pipeline: use DHM to keep databases in memory Open

priority 1

biocore/microprot#61 · 1 comment · 2 assignees · Opened Jul 10, 2017
Snakemake: code outside of rules executed multiple times Open

version 2

biocore/microprot#58 · 1 assignee · Opened Jul 5, 2017
Snakemake: auto-generate benchmarking and reporting info Open

version 2

biocore/microprot#57 · 1 assignee · Opened Jul 5, 2017
BUG: split_search.mask_sequence does not pick optimal fragments Open

bug

biocore/microprot#51 · 3 comments · 1 assignee · Opened Jul 2, 2017
calculate effective family size for MSA_ripe rule Open

finishing touches version 3

biocore/microprot#26 · 11 comments · 1 assignee · Opened Feb 22, 2017

biocore/microprot

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