Skip to content

Issues: bonsai-team/matam

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

43 Open 72 Closed
43 Open 72 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

Input fastq file enhancement
#120 opened Oct 20, 2023 by CaroB-M
Specify the --cpu 4 but only 1 cpu was utilized bug
#118 opened Aug 15, 2023 by zuopengl
Use Minimap2 for scaffolding instead of SortMeRNA enhancement
#116 opened May 11, 2023 by ppericard v1.7.0
@ppericard
Add Changelog following current standards enhancement
#115 opened May 11, 2023 by ppericard v1.6.2
@ppericard
Repatriate ComponentSearch in MATAM repo enhancement
#114 opened May 11, 2023 by ppericard v1.6.2
@ppericard
core-sga files
#110 opened Mar 10, 2023 by joao1980
can you please help me solve this issue
#109 opened Aug 13, 2022 by triplem90manas
Get single marker gene from read
#108 opened May 19, 2022 by Lcornet
matam_db_preprocessing.py clustering
#107 opened May 18, 2022 by mdsufz
How to improve final alignement
#106 opened Jan 25, 2022 by MonicaSteffi
Error in get the default SSU rRNA reference database bug
#105 opened Dec 29, 2021 by duu-123
Output files clarification
#104 opened Sep 6, 2021 by NataliHB
fastq format foward only or interleaved fastq? question
#103 opened Jun 9, 2021 by jianshu93
@loic-couderc
1
Reduce memory usage of scaffolding step - Limit size of SAM file from aligning contigs against complete ref db enhancement
#97 opened Nov 4, 2019 by ppericard
3 tasks
v2.0.0
Our bioconda recipe does not use the build.py script enhancement
#95 opened Oct 16, 2019 by loic-couderc
1
Better error message when the input file does not exist enhancement
#94 opened Oct 16, 2019 by loic-couderc
1
Read alignment SAM file is not sorted correctly prior to score filtering bug
#88 opened Jul 30, 2019 by ppericard
Replace SortMeRNA by Minimap2 for contig mapping onto the complete ref database enhancement
#87 opened Jul 28, 2019 by ppericard Backlog
MATAM on conda uses biocore/sortmerna instead of ppericard/sortmerna which makes it slower conda need follow-up question
#85 opened Jul 22, 2019 by ppericard
3
Add GitHub Pages for the project enhancement
#78 opened May 29, 2019 by ppericard
Add filter for very low support scaffolds (count < 1) enhancement
#76 opened May 22, 2019 by ppericard
No option --perform_taxonomic_assignment user-error
#73 opened May 6, 2019 by ciemanek
4
Homogenize database option usage (-d) when creating and using a MATAM db enhancement
#70 opened Feb 11, 2019 by ppericard
Error in matam_assembly on Docker when running example file user-error
#63 opened Jul 11, 2018 by rachelleLim
@loic-couderc
5
Update krona visualization to take into account RDP confidence scores enhancement
#54 opened Oct 31, 2017 by loic-couderc Backlog
1
ProTip! Type g i on any issue or pull request to go back to the issue listing page.