bgruening
Follow
Popular repositories
5,309 contributions in the last year
Activity overview
Contributed to
galaxyproject/tools-iuc,
bioconda/bioconda-recipes,
usegalaxy-eu/website
and 5 other
repositories
Contribution activity
January 2021
Created 137 commits in 21 repositories
Created 8 repositories
- bgruening/Jasmine Java
- bgruening/Iris Java
- bgruening/cellxgene JavaScript
- bgruening/simtext R
- bgruening/dia-pasef Python
- bgruening/DIAlignR C++
- bgruening/readthedocs.org Python
- bgruening/CrossMap Python
Created a pull request in galaxyproject/tools-iuc that received 12 comments
Add bio.tools IDs to tools
This is a WIP. We will try to add some more ideas to our tools, please feel free to push to this branch.
+1,388
−309
•
12
comments
Opened 14 other pull requests in 12 repositories
usegalaxy-eu/website
2
merged
galaxyproject/galaxy
2
merged
mkirsche/Jasmine
1
merged
mkirsche/Iris
1
merged
chanzuckerberg/cellxgene
1
open
usegalaxy-eu/infrastructure-playbook
1
merged
galaxyproject/galaxy-language-server
1
merged
dlal-group/simtext
1
merged
Roestlab/dia-pasef
1
open
Roestlab/DIAlignR
1
merged
liguowang/CrossMap
1
open
bioconda/bioconda-recipes
1
merged
Reviewed 119 pull requests in 18 repositories
bioconda/bioconda-recipes 38 pull requests
- update new version of xTea
- Update dependencies
- Update msPurity to 1.16.2 - bug fix for storing intra spectra in sqlite db
- Add president v0.2.1
- Update spliced_bam2gff to 1.3
- Add HTSeqQC v1.0
- Update pyprophet to 2.1.6
- Update vg to 1.30.0
- Update famsa to 1.6.2 (and add identifiers)
- Update msi to 0.3.5
- Update seq2science to 0.4.2
- Update illumina-utils to 2.9
- Add purge_dups package
- Bump pangolin to 2.1.7
- Update edta to 1.9.6
- Update pyranges to 0.0.92
- Add Megadepth recipe
- Update idr-py to 0.4.2
- Update flight-genome to 1.0.1
- Update enrichm to 0.6.3
- Update dfast_qc to 0.2.6
- Update fwdpy11 to 0.12.0
- Update snp-pileup to 0.6.1
- Update epic2 to 0.0.48
- Update treesapp to 0.9.8
- Some pull request reviews not shown.
galaxyproject/tools-iuc 28 pull requests
- Update delly to 0.8.7
- Adding vcfanno: VCF annotation - for SV Webinar
- Adding JasmineSV: SV merging - For SV Webinar
- Update to BCFTools 1.11
- Adding irissv: Insertion polishing for SVs - For SV Webinar
- Add Salsa2
- Update to HyPhy 2.5.26
- fix ruvseq
- [WIP] Add: Pisces
- chimera.vsearch: fix output filter
- Add: KofamScan
- hmmer: fix number of CPUs
- Add memory option to metaSPAdes
- Add rgcca
- Medaka update
- Fix some lastsplit options
- Update HyPhy wrappers to 2.5.25
- Upgrade Anndata to 0.7.4
- STARsolo: new filtering options and tests
- Fix DropletUtils plot label
- Update tb-profiler to version 2.8.14
- Yet another snpfreqplot fix
- update einfo test-data
- Update samtools_view.xml - use GALAXY_MEMORY_MB_PER_SLOT as samtools_…
- Revert changes in pr.yaml
- Some pull request reviews not shown.
galaxyproject/galaxy 17 pull requests
- Documentation and helpers for using galaxy-selenium package within Jupyter
- [21.01] Add setting that lets admins enable/disable the tool document cache
- Recommend 2FA and commit signing
- Fix all E203, E741 and W504 flake8 errors
- Add minimal `msf` datatype
- Optimized binary datatype sniffing for various binary datatypes.
- Vue-ify Workflow State Upgrade Message Modal
- Remove unused tag_outputs workflow controller action.
- Last few typing fixes to enable mypy check of all of lib/
- Python 3 - Convert a bunch of Bunchs to string Enums
- More type annotation fixes.
- more mutable fixes + some extra cleanups
- More structured workflow create/update parameter handling
- Document how parameters in sections are referenced
- Upload test results as artifact in case of failure
- AnnData Peek Fix
- Add nifti1 and nifti2 datatype
usegalaxy-eu/website 7 pull requests
galaxyproteomics/tools-galaxyp 6 pull requests
galaxyproject/training-material 4 pull requests
galaxyproject/galaxy-language-server 4 pull requests
usegalaxy-eu/usegalaxy-eu-tools 2 pull requests
galaxycomputationalchemistry/galaxy-tools-compchem 2 pull requests
bgruening/galaxytools 2 pull requests
galaxyproject/planemo 2 pull requests
galaxyproject/SARS-CoV-2 1 pull request
BioContainers/multi-package-containers 1 pull request
galaxyproject/tools-devteam 1 pull request
galaxyproject/galaxy-hub 1 pull request
dlal-group/simtext 1 pull request
bio-tools/content 1 pull request
conda-forge/staged-recipes 1 pull request
Created an issue in galaxyproject/galaxy-language-server that received 1 comment
new IUC tool standard for version
I think we should add this to the snippets and to the bootstrapped template tool.
<macros> <token name="@TOOL_VERSION@">$1</token> <token name="@V…
1
comment
Opened 5 other issues in 4 repositories
galaxyproject/galaxy-language-server
1
open
1
closed
bio-tools/content
1
open
galaxyproject/training-material
1
open
bioconda/bioconda-recipes
1
open
12
contributions
in private repositories
Jan 2 – Jan 10