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Fixes #374. If not ancestry_snps_included, bypasses rule `grafpop_a…

rajwanirpushed 1 commit to data_catalog • 5639aca…c175d9d • 
2 days ago

Fixes #373. If not sex_chr_included bypasses impute_sex by copyin…

rajwanirpushed 1 commit to data_catalog • ed03b19…5639aca • 
4 days ago

add subworkflow

carynwilliscreated issue_357 • 6b5a26b • 
5 days ago

Fixes #372. Ensures _read_GRAF converts NA to other before doing st…

rajwanirpushed 1 commit to data_catalog • 395b538…ed03b19 • 
9 days ago

Fixes #371. Resumes contamination and intensity_check per BCF entry_p…

rajwanirpushed 1 commit to data_catalog • 77b172c…395b538 • 
9 days ago

Fixes #370. Skips samples that fail GTC creation.

rajwanirpushed 2 commits to data_catalog • 6e2b619…77b172c • 
16 days ago

Fixes #369. Adds soft filter to bcf for REF==ALT records and skip t…

rajwanirpushed 1 commit to data_catalog • 85e22d9…6e2b619 • 
20 days ago

Updates gtc2vcf which includes Omni5Exome fix.

rajwanirpushed 1 commit to data_catalog • 61c892a…85e22d9 • 
20 days ago

Appends --use-envmodules to the snakemake CLI by default.

Force push
rajwanirforce pushed to data_catalog • 13cf63d…61c892a • 
on Dec 12, 2024

Merge pull request #362 from NCI-CGR/sample_concordance_efficiency

Pull request merge
jaamarkspushed 12 commits to default • 48dd35f…f545d00 • 
on Dec 11, 2024

docs: corrects the read_genome doctring that it reads IID1,IID2 not…

rajwanirpushed 1 commit to sample_concordance_efficiency • 7ff778a…6e4fc09 • 
on Dec 11, 2024

Adds an option to skip/include king and graf relatedness checks #364.

rajwanircreated skip_king • 32280d4 • 
on Dec 11, 2024

Revises chunk_size in read_genome to 100000.

rajwanirpushed 1 commit to sample_concordance_efficiency • 9b57d43…7ff778a • 
on Dec 11, 2024

docs: updates docstring for read_genome.

rajwanirpushed 2 commits to sample_concordance_efficiency • 6cfe43e…9b57d43 • 
on Dec 11, 2024

Reduces memory usage for plink rule genome.

rajwanircreated genome_performance • 2b08a3f • 
on Dec 2, 2024

Downgrades the resources needed for sample_concordance_plink based on…

rajwanircreated sample_concordance_efficiency • 6cfe43e • 
on Nov 29, 2024

Uses workflow.cores variable to define threads in select rules.

rajwanircreated threads_via_variable • acc7df7 • 
on Nov 25, 2024

Adds an IDAT entry_point which converts idat2gtc.

rajwanirpushed 4 commits to data_catalog • f72247e…13cf63d • 
on Nov 25, 2024

deploy: 48dd35f

github-actions[bot]pushed 1 commit to gh-pages • dd2b69a…0cf3305 • 
on Nov 21, 2024

Merge pull request #356 from NCI-CGR/issue_349

Pull request merge
carynwillispushed 2 commits to default • 6e06c19…48dd35f • 
on Nov 21, 2024

fix .nosex missing issue

carynwilliscreated issue_349 • f5fe239 • 
on Nov 21, 2024

deploy: 6e06c19

github-actions[bot]pushed 1 commit to gh-pages • 0bbdb34…dd2b69a • 
on Nov 20, 2024

Bump version for release candidate 1.8.0-rc2

jaamarkspushed 1 commit to default • eec2191…6e06c19 • 
on Nov 20, 2024

Deleted branch

jaamarksdeleted revert-354-issue353/edit-report-3.5.1 • 
on Nov 20, 2024

Revert "report: Remove the sentence about low replicate concordance (…

jaamarkscreated revert-354-issue353/edit-report-3.5.1 • 067a448 • 
on Nov 20, 2024

Merge pull request #354 from jaamarks/issue353/edit-report-3.5.1

Pull request merge
jaamarkspushed 2 commits to default • 95a1fed…eec2191 • 
on Nov 20, 2024

Merge pull request #355 from jaamarks/issue352/unexpected-rep-count-w…

Pull request merge
jaamarkspushed 3 commits to default • a45716c…95a1fed • 
on Nov 20, 2024

deploy: a45716c

github-actions[bot]pushed 1 commit to gh-pages • b30efad…0bbdb34 • 
on Nov 11, 2024

Bump version for release candidate 1.8.0-rc1

jaamarkspushed 1 commit to default • 4c99fcc…a45716c • 
on Nov 11, 2024

Merge pull request #346 from NCI-CGR/data_catalog

Pull request merge
jaamarkspushed 20 commits to default • c618175…4c99fcc • 
on Nov 11, 2024