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paulsengroup
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2022-mcf10a-cancer-progression
Data analysis code for: "Loss of multi-level 3D genome organization during breast cancer progression" (preprint available soon)
MIT License
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Bump fedora from 37 to 38 in /containers
#73
dependabot[bot]
closed
1 year ago
0
Update fetch_data workflow and downloads.tsv
#72
robomics
closed
1 year ago
0
Update base configs for SAGA and hovig
#71
robomics
closed
1 year ago
0
Update nfcore/hic to v2.0.0
#70
robomics
closed
1 year ago
0
Use -params-files instead of -c to pass parameter to nf-core pipelines
#69
robomics
closed
1 year ago
0
Update CI
#68
robomics
closed
1 year ago
0
Bump mambaorg/micromamba from 1.4.0 to 1.4.2 in /containers
#67
dependabot[bot]
closed
1 year ago
0
Create README.md
#66
robomics
closed
1 year ago
0
Update call_tad_cliques workflow
#65
robomics
closed
1 year ago
0
Add env.yml for conda dev environment
#64
robomics
closed
1 year ago
0
Update RNA-seq workflows
#63
robomics
closed
1 year ago
0
Update Dockerfiles
#62
robomics
closed
1 year ago
0
Fix labels for 'process_very_short'
#61
robomics
closed
1 year ago
0
Bump mambaorg/micromamba from 1.4.0 to 1.4.1 in /containers
#60
dependabot[bot]
closed
1 year ago
1
Update Dockerfiles
#59
robomics
closed
1 year ago
0
Bump mambaorg/micromamba from 1.3.1 to 1.4.0 in /containers
#58
dependabot[bot]
closed
1 year ago
0
Bump curlimages/curl from 7.88.1 to 8.00.1 in /containers
#57
dependabot[bot]
closed
1 year ago
2
Update dcHiC and samtools Dockerfiles
#56
robomics
closed
1 year ago
0
Bump curlimages/curl from 7.88.1 to 8.00.0 in /containers
#55
dependabot[bot]
closed
1 year ago
1
Update compartment analysis
#54
robomics
closed
1 year ago
0
Update rnaseq workflow
#53
robomics
closed
1 year ago
0
Update compare_subcompartment_size_distribution.py
#52
robomics
closed
1 year ago
0
Add Chrom3D's Dockerfile
#51
robomics
closed
1 year ago
0
Add LADs to download list
#50
robomics
closed
1 year ago
0
Add Dockerfile for chrom3d workflow
#49
robomics
closed
1 year ago
0
Add Dockerfile for comparative-analysis workflow
#48
robomics
closed
1 year ago
0
Initial commit of comparative-analyisis workflow
#47
robomics
closed
1 year ago
0
Chrom3D nextflow configuration
#46
mooshagh
closed
1 year ago
0
Update compartment analysis workflow
#45
robomics
closed
1 year ago
0
Update samplesheets
#44
robomics
closed
1 year ago
0
Test
#43
robomics
closed
1 year ago
0
Revert "Chrom3d"
#42
mooshagh
closed
1 year ago
0
Chrom3d
#41
mooshagh
closed
1 year ago
0
Bump paulsengroup/ci-docker-images/ubuntu-22.04-cxx-gcc-12 from 20230204 to 20230228 in /containers
#40
dependabot[bot]
closed
1 year ago
2
Update CI to build Dockerfiles using reusable workflows
#39
robomics
closed
1 year ago
0
Bump curlimages/curl from 7.87.0 to 7.88.1 in /containers
#38
dependabot[bot]
closed
1 year ago
0
Bump mambaorg/micromamba from 1.3.0 to 1.3.1 in /containers
#37
dependabot[bot]
closed
1 year ago
0
Bump mambaorg/micromamba from 1.2.0 to 1.3.0 in /containers
#36
dependabot[bot]
closed
1 year ago
0
Bump ubuntu from 22.04 to 22.10 in /containers
#35
dependabot[bot]
closed
1 year ago
2
Bump ubuntu from 22.04 to 23.04 in /containers
#34
dependabot[bot]
closed
1 year ago
2
Bump docker/build-push-action from 3 to 4
#33
dependabot[bot]
closed
1 year ago
0
Bump mambaorg/micromamba from 1.1.0 to 1.2.0 in /containers
#32
dependabot[bot]
closed
1 year ago
0
Bump curlimages/curl from 7.86.0 to 7.87.0 in /containers
#31
dependabot[bot]
closed
1 year ago
0
Revert commit 21c7742 once Cooler is compatible with the latest numpy and matplotlib versions
#30
robomics
closed
1 year ago
0
Bump tj-actions/changed-files from 34 to 35
#29
dependabot[bot]
closed
1 year ago
1
Bump mambaorg/micromamba from 1.0.0 to 1.1.0 in /containers
#28
dependabot[bot]
closed
1 year ago
0
Bump tj-actions/changed-files from 32 to 34
#27
dependabot[bot]
closed
2 years ago
0
Bump tj-actions/changed-files from 32 to 33
#26
dependabot[bot]
closed
2 years ago
1
Software to cite
#25
robomics
closed
1 year ago
2
Bump tj-actions/changed-files from 31 to 32
#24
dependabot[bot]
closed
2 years ago
0
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