metagentools/MetaCoAG issues and pull requests

#47 - MAINT: first effort at porting to use cogent3 for formatting

Pull Request - State: closed - Opened by GavinHuttley 6 months ago

#46 - DEV: port to use cogent3 sequence parsing / writing

Issue - State: open - Opened by GavinHuttley 6 months ago - 1 comment

#45 - UnboundLocalError: local variable 'my_matching' referenced before assignment

Issue - State: open - Opened by franciscozorrilla 6 months ago - 1 comment

#44 - coverage across multiple samples for binning

Issue - State: open - Opened by franciscozorrilla 6 months ago - 1 comment

#43 - Cannot find FragGeneScan

Issue - State: closed - Opened by bheimbu 8 months ago - 2 comments

#42 - KeyError contig_4488

Issue - State: open - Opened by ZarulHanifah 8 months ago - 2 comments

#41 - ENH: MPI support to run multiple samples at once

Issue - State: open - Opened by Vini2 10 months ago

#40 - DOC: Update README.md

Pull Request - State: closed - Opened by Vini2 about 1 year ago

#39 - REL: Create pypi-publish.yml

Pull Request - State: closed - Opened by Vini2 over 1 year ago

#38 - Change python-igraph to igraph

Issue - State: closed - Opened by Vini2 over 1 year ago

#37 - Error while running MetaCoag; wrong hmm file location?

Issue - State: closed - Opened by ZarulHanifah over 1 year ago - 3 comments

#36 - Explain output

Issue - State: closed - Opened by Vini2 over 1 year ago
Labels: documentation

#35 - About HMM

Pull Request - State: closed - Opened by Andyargueasae over 1 year ago - 2 comments

#34 - Merge pull request #33 from metagentools/develop

Pull Request - State: closed - Opened by Vini2 over 1 year ago

#33 - GIT: Merge develop to master

Pull Request - State: closed - Opened by Vini2 over 1 year ago

#32 - KeyError: 'Contig'

Issue - State: closed - Opened by htaohan over 1 year ago - 2 comments
Labels: help wanted

#31 - Is process hanging or will it just take a while?

Issue - State: closed - Opened by nmb85 almost 2 years ago - 6 comments
Labels: help wanted

#30 - contig2fastg

Issue - State: closed - Opened by Rahimlou almost 2 years ago - 3 comments
Labels: help wanted, question

#28 - Raise exception if FragGeneScan and HMMER are not installed

Issue - State: closed - Opened by Vini2 about 2 years ago
Labels: enhancement

#27 - ENH: Add support to input depth file from MetaBAT2

Issue - State: open - Opened by Vini2 about 2 years ago
Labels: enhancement

#26 - Replace argparse with click

Issue - State: closed - Opened by Vini2 over 2 years ago
Labels: enhancement

#25 - Validate args.paths check for Flye input

Issue - State: closed - Opened by Vini2 over 2 years ago
Labels: bug

#24 - Merge pull request #23 from metagentools/develop

Pull Request - State: closed - Opened by Vini2 over 2 years ago

#23 - Merge changes in develop to master

Pull Request - State: closed - Opened by Vini2 over 2 years ago

#22 - DEV: update requirements.txt

Pull Request - State: closed - Opened by Vini2 over 2 years ago

#21 - Exit gracefully

Issue - State: closed - Opened by pbelmann over 2 years ago - 1 comment
Labels: bug

#20 - question of megahit

Issue - State: open - Opened by yuyuyu-fy over 2 years ago - 6 comments

#19 - Setup testing suit and CI

Issue - State: closed - Opened by Vini2 over 2 years ago - 1 comment

#18 - Move documentation to Read the Docs

Issue - State: closed - Opened by Vini2 over 2 years ago - 1 comment
Labels: enhancement

#17 - question about using fastg2fga with metaspades

Issue - State: closed - Opened by esraagithub over 2 years ago - 4 comments
Labels: help wanted

#16 - [Feature request] Make conda installable

Issue - State: closed - Opened by jolespin over 2 years ago - 5 comments
Labels: enhancement

#15 - Question about using MEGAHIT assembly

Issue - State: closed - Opened by jarrodscott about 3 years ago - 2 comments

#14 - Extremely long file write times

Issue - State: closed - Opened by GabeAl about 3 years ago - 1 comment
Labels: enhancement, question

#13 - Add functionality to output contig/scaffolds_to_bin.tsv file

Issue - State: closed - Opened by Vini2 about 3 years ago

#12 - Dataset query

Issue - State: closed - Opened by mant-ux about 3 years ago - 3 comments
Labels: question

#11 - Add fraggenescan and hmmer to conda environment

Issue - State: closed - Opened by Vini2 about 3 years ago - 1 comment
Labels: enhancement

#10 - 1

Issue - State: closed - Opened by mant-ux about 3 years ago

#8 - KeyError: 'N' in mer2bits

Issue - State: closed - Opened by krutkinam about 3 years ago - 3 comments
Labels: bug, enhancement, help wanted

#7 - Question about output pickle file

Issue - State: closed - Opened by jdwinkler-lanzatech about 3 years ago - 2 comments
Labels: question

#6 - Using results from metaSPAdes

Issue - State: closed - Opened by jhCha1994 about 3 years ago - 2 comments
Labels: question

#5 - Computing abundance TSV

Issue - State: closed - Opened by jdwinkler-lanzatech about 3 years ago - 4 comments

#4 - Speed up writing final bins

Issue - State: closed - Opened by chassenr about 3 years ago - 4 comments
Labels: enhancement

#3 - keyError in get_cov_len_megahit

Issue - State: closed - Opened by jamesabbott about 3 years ago - 14 comments
Labels: bug

#2 - Question: graph input for polished flye assembly

Issue - State: closed - Opened by ZarulHanifah about 3 years ago - 7 comments
Labels: help wanted, question

#1 - [Feature Request] Custom marker sets as an argument

Issue - State: closed - Opened by jolespin about 3 years ago - 9 comments
Labels: enhancement, good first issue

GitHub / metagentools/MetaCoAG issues and pull requests