Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / pystatgen/sgkit-publication issues and pull requests

#98 - Haircut

Pull Request - State: closed - Opened by jeromekelleher 7 months ago

#97 - Reference on scientific software ecosystems

Issue - State: open - Opened by jeromekelleher 7 months ago

#96 - Mention DivBrowse

Issue - State: open - Opened by jeromekelleher 8 months ago - 1 comment

#95 - Add chunked data model diagram

Pull Request - State: closed - Opened by timothymillar 8 months ago

#94 - Sequential VCF parsing

Pull Request - State: closed - Opened by jeromekelleher 9 months ago - 8 comments

#93 - Dask citation

Issue - State: open - Opened by jeromekelleher 9 months ago

#92 - SVCR

Issue - State: open - Opened by hammer 9 months ago - 2 comments

#91 - Storage draft

Pull Request - State: closed - Opened by jeromekelleher 9 months ago - 1 comment

#90 - Pass at abstract and change title

Pull Request - State: closed - Opened by jeromekelleher 9 months ago

#89 - QC section

Issue - State: open - Opened by hammer 9 months ago - 1 comment

#87 - Initial pass at distributed compute narrative

Pull Request - State: closed - Opened by jeromekelleher 9 months ago

#85 - Contribution protocols

Pull Request - State: closed - Opened by jeromekelleher 9 months ago - 1 comment

#85 - Contribution protocols

Pull Request - State: closed - Opened by jeromekelleher 9 months ago - 1 comment

#84 - Parquet for VCFs context

Issue - State: closed - Opened by hammer 9 months ago

#84 - Parquet for VCFs context

Issue - State: closed - Opened by hammer 9 months ago

#83 - Add overleaf link and editing protocols to README

Issue - State: closed - Opened by jeromekelleher 9 months ago

#83 - Add overleaf link and editing protocols to README

Issue - State: closed - Opened by jeromekelleher 9 months ago

#82 - Generalise title

Issue - State: closed - Opened by jeromekelleher 9 months ago - 2 comments

#81 - Refactor

Pull Request - State: closed - Opened by jeromekelleher 9 months ago

#81 - Refactor

Pull Request - State: closed - Opened by jeromekelleher 9 months ago

#80 - Gigascience

Pull Request - State: closed - Opened by jeromekelleher 9 months ago

#80 - Gigascience

Pull Request - State: closed - Opened by jeromekelleher 9 months ago

#78 - Statistical genetics section

Issue - State: open - Opened by hammer 9 months ago - 23 comments

#77 - Discuss admix-kit

Issue - State: open - Opened by hammer 9 months ago - 1 comment
Labels: related work

#77 - Discuss admix-kit

Issue - State: open - Opened by hammer 9 months ago - 1 comment
Labels: related work

#76 - Put figures into repo?

Issue - State: closed - Opened by hammer 9 months ago - 4 comments

#76 - Put figures into repo?

Issue - State: closed - Opened by hammer 9 months ago - 4 comments

#75 - Potential discussion narrative

Pull Request - State: closed - Opened by jeromekelleher 9 months ago - 3 comments

#74 - Add some memory benchmarks

Issue - State: open - Opened by jeromekelleher 9 months ago

#74 - Add some memory benchmarks

Issue - State: open - Opened by jeromekelleher 9 months ago

#73 - Record storage destination

Pull Request - State: closed - Opened by jeromekelleher 9 months ago

#73 - Record storage destination

Pull Request - State: closed - Opened by jeromekelleher 9 months ago

#72 - Whole matrix supplemental

Pull Request - State: closed - Opened by jeromekelleher 10 months ago - 3 comments

#72 - Whole matrix supplemental

Pull Request - State: closed - Opened by jeromekelleher 10 months ago - 3 comments

#71 - Add supplemental whole-matrix compute figure

Issue - State: closed - Opened by jeromekelleher 10 months ago - 1 comment

#70 - Add TileDB to comparisons?

Issue - State: open - Opened by timothymillar 10 months ago - 1 comment
Labels: related work

#69 - Data for genozip

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

#69 - Data for genozip

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

#68 - Add support for specific slices for genozip

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

#68 - Add support for specific slices for genozip

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

#67 - Add slicing support to savvy-afdist for fig 3

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

#66 - Add interesting sample-subsetting in Fig 3

Issue - State: open - Opened by jeromekelleher 10 months ago - 1 comment

#66 - Add interesting sample-subsetting in Fig 3

Issue - State: open - Opened by jeromekelleher 10 months ago - 1 comment

#65 - Plot subsetting performance

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

#64 - Update story

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

#64 - Update story

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

#63 - Update code to run for full dataset

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

#63 - Update code to run for full dataset

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

#62 - Threads data

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

#60 - Add version tracking

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

#60 - Add version tracking

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

#59 - Improve data collection interface

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

#59 - Improve data collection interface

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

#58 - Greater than k-fold speedup in sgkit with k threads

Issue - State: closed - Opened by jeromekelleher 10 months ago - 3 comments

#58 - Greater than k-fold speedup in sgkit with k threads

Issue - State: closed - Opened by jeromekelleher 10 months ago - 3 comments

#57 - Initial fold-speedup from threads plot

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

#56 - Update numbers

Pull Request - State: closed - Opened by jeromekelleher 10 months ago - 1 comment

#56 - Update numbers

Pull Request - State: closed - Opened by jeromekelleher 10 months ago - 1 comment

#55 - Fix segfault in savvy-afdist

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

#55 - Fix segfault in savvy-afdist

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

#54 - Flesh out the bibliography for compression tools

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

#53 - Add genozip tool + preliminary file size data.

Pull Request - State: closed - Opened by jeromekelleher 10 months ago - 1 comment

#53 - Add genozip tool + preliminary file size data.

Pull Request - State: closed - Opened by jeromekelleher 10 months ago - 1 comment

#52 - Discuss "compressive genomics"

Issue - State: open - Opened by jeromekelleher 10 months ago - 2 comments

#52 - Discuss "compressive genomics"

Issue - State: open - Opened by jeromekelleher 10 months ago - 2 comments

#50 - A draft of the story

Pull Request - State: closed - Opened by jeromekelleher 10 months ago - 3 comments

#50 - A draft of the story

Pull Request - State: closed - Opened by jeromekelleher 10 months ago - 3 comments

#49 - Change target journal to GigaScience?

Issue - State: closed - Opened by jeromekelleher 10 months ago - 3 comments

#49 - Change target journal to GigaScience?

Issue - State: closed - Opened by jeromekelleher 10 months ago - 3 comments

#48 - Data storage story

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

#47 - Optimise chunk sizes for both perf and storage scaling plots

Issue - State: open - Opened by benjeffery 10 months ago - 2 comments

#46 - Make data model fig higher level with chunking

Issue - State: closed - Opened by jeromekelleher 10 months ago - 4 comments

#45 - Savvy benchmark - WIP

Pull Request - State: closed - Opened by benjeffery 10 months ago - 3 comments

#45 - Savvy benchmark - WIP

Pull Request - State: closed - Opened by benjeffery 10 months ago - 3 comments

#44 - Discuss Eugene

Issue - State: open - Opened by jeromekelleher 10 months ago - 2 comments
Labels: related work

#44 - Discuss Eugene

Issue - State: open - Opened by jeromekelleher 10 months ago - 2 comments
Labels: related work

#43 - Use HAPNEST data for gwas demo?

Issue - State: open - Opened by jeromekelleher 10 months ago - 8 comments

#43 - Use HAPNEST data for gwas demo?

Issue - State: open - Opened by jeromekelleher 10 months ago - 8 comments

#42 - Benchmark relationship matrices

Issue - State: open - Opened by timothymillar 10 months ago - 7 comments

#42 - Benchmark relationship matrices

Issue - State: open - Opened by timothymillar 10 months ago - 7 comments

#41 - Pass through API list to categorise

Pull Request - State: closed - Opened by jeromekelleher 11 months ago

#41 - Pass through API list to categorise

Pull Request - State: closed - Opened by jeromekelleher 11 months ago

#40 - 1m vcf results

Pull Request - State: closed - Opened by jeromekelleher 12 months ago - 1 comment

#40 - 1m vcf results

Pull Request - State: closed - Opened by jeromekelleher 12 months ago - 1 comment

#39 - Scaling-out comparison with Hail

Issue - State: open - Opened by jeromekelleher about 1 year ago
Labels: related work

#39 - Scaling-out comparison with Hail

Issue - State: open - Opened by jeromekelleher about 1 year ago
Labels: related work

#38 - Include SAV in data scaling figure

Issue - State: closed - Opened by jeromekelleher about 1 year ago - 28 comments

#38 - Include SAV in data scaling figure

Issue - State: closed - Opened by jeromekelleher about 1 year ago - 28 comments

#37 - Start on data narrative

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

#36 - Tweaks to make large VCF convert

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

#36 - Tweaks to make large VCF convert

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

#35 - Sgkit conversion for 1M samples taking too long

Issue - State: closed - Opened by jeromekelleher about 1 year ago - 48 comments

#35 - Sgkit conversion for 1M samples taking too long

Issue - State: closed - Opened by jeromekelleher about 1 year ago - 48 comments

#34 - Scaling fig shows poor performance relative to bcftools

Issue - State: closed - Opened by jeromekelleher about 1 year ago - 4 comments