wwood/galah issues and pull requests

#46 - Update README.md and man

Pull Request - State: closed - Opened by solc42 3 months ago - 3 comments

#45 - Allow contig clustering

Pull Request - State: open - Opened by AroneyS 6 months ago

#44 - error: unexpected argument '-d' found

Issue - State: closed - Opened by xvazquezc 7 months ago - 2 comments

#43 - build(deps): update disjoint requirement from 0.6.* to 0.7.*

Pull Request - State: open - Opened by dependabot[bot] 9 months ago
Labels: dependencies

#42 - build(deps): update env_logger requirement from 0.10.* to 0.11.*

Pull Request - State: open - Opened by dependabot[bot] 10 months ago
Labels: dependencies

#41 - Add citations and release

Pull Request - State: closed - Opened by AroneyS 10 months ago

#40 - Switch genome name lookup to hashmap

Pull Request - State: open - Opened by AroneyS 12 months ago - 2 comments

#39 - Fix skani shuffle

Pull Request - State: closed - Opened by AroneyS 12 months ago - 3 comments

#38 - Fix log message

Pull Request - State: closed - Opened by AroneyS 12 months ago

#37 - Skani preclusterer speed-up

Pull Request - State: closed - Opened by AroneyS about 1 year ago - 6 comments

#36 - skani is not parallelized in `galah cluster`

Issue - State: closed - Opened by apcamargo about 1 year ago - 2 comments

#35 - Implement skani preclusterer

Pull Request - State: closed - Opened by AroneyS about 1 year ago - 2 comments

#34 - Refactor clusterer choice

Pull Request - State: closed - Opened by wwood about 1 year ago - 4 comments

#33 - Refactor clusterer choice

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

#32 - Finch running time

Issue - State: closed - Opened by AroneyS over 1 year ago - 1 comment

#31 - unnecessary fastani check

Issue - State: open - Opened by wwood over 1 year ago

#30 - Implement skani as fastani alternative

Pull Request - State: closed - Opened by AroneyS over 1 year ago - 7 comments

#29 - Failed to find sufficient version of dashing

Issue - State: open - Opened by michoug over 1 year ago - 1 comment

#28 - checkM table not working

Issue - State: closed - Opened by Sanrrone over 1 year ago - 1 comment

#27 - add bindash support instead of dashing

Issue - State: open - Opened by jianshu93 over 1 year ago - 1 comment

#26 - Compilation error

Issue - State: open - Opened by Rridley7 almost 2 years ago - 2 comments

#25 - build(deps): update finch requirement from 0.3.* to 0.5.*

Pull Request - State: closed - Opened by dependabot[bot] almost 2 years ago - 2 comments
Labels: dependencies

#24 - build(deps): update env_logger requirement from 0.9.* to 0.10.*

Pull Request - State: closed - Opened by dependabot[bot] almost 2 years ago - 2 comments
Labels: dependencies

#23 - Wrong genome annotation

Issue - State: open - Opened by SilasK about 2 years ago

#22 - Low quality genomes end up as seperate species.

Issue - State: open - Opened by SilasK about 2 years ago

#21 - Intermediate output

Issue - State: open - Opened by SilasK about 2 years ago

#20 - build(deps): update clap requirement from 3.* to 4.*

Pull Request - State: closed - Opened by dependabot[bot] about 2 years ago - 2 comments
Labels: dependencies

#19 - Dashing failed

Issue - State: open - Opened by SilasK about 2 years ago - 1 comment

#18 - If input genomes are short, they don't cluster

Issue - State: open - Opened by wwood over 2 years ago

#17 - Regarding galah output

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

#16 - dashing2 instead of dashing1

Issue - State: open - Opened by jianshu93 over 2 years ago

#15 - build(deps): update clap requirement from 2.* to 3.*

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 1 comment
Labels: dependencies

#14 - sketches in pre-cluster for a little bit distant related genomes

Issue - State: open - Opened by jianshu93 almost 3 years ago - 4 comments

#13 - --min-aligned-fraction, as fraction?

Issue - State: open - Opened by aistBMRG almost 3 years ago

#12 - build(deps): update env_logger requirement from 0.8.* to 0.9.*

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 1 comment
Labels: dependencies

#11 - build(deps): update finch requirement from 0.3.* to 0.4.*

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 1 comment
Labels: dependencies

#10 - adding logo

Pull Request - State: closed - Opened by rhysnewell over 3 years ago - 1 comment

#9 - Dereplicate MAGs on strain level

Issue - State: closed - Opened by alienzj over 3 years ago - 2 comments

#8 - Fix argument parsing for '--precluster-ani'

Pull Request - State: closed - Opened by apcamargo about 4 years ago - 2 comments

#7 - Galah not clustering MAGs with ANI greater than the threshold

Issue - State: closed - Opened by apcamargo over 4 years ago - 3 comments

#6 - Update fastANI requirement to 1.31

Issue - State: closed - Opened by apcamargo over 4 years ago - 1 comment

#5 - Question about clustering mechanism

Issue - State: closed - Opened by MrOlm over 4 years ago - 3 comments

#4 - Fix typo

Pull Request - State: closed - Opened by apcamargo over 4 years ago - 1 comment

#3 - Option to save cluster representative

Issue - State: closed - Opened by apcamargo over 4 years ago - 5 comments

#2 - Fix typo

Pull Request - State: closed - Opened by apcamargo over 4 years ago - 1 comment

#1 - [Question] MAG quality score

Issue - State: closed - Opened by apcamargo almost 5 years ago - 8 comments

GitHub / wwood/galah issues and pull requests