GitHub topics: copynumber
genepattern/AmpliconSuite Fork of edwin5588/paa_custom
Wraps the AmpliconSuite-pipeline workflow to identify one or more connected genomic regions which have copy number amplifications.
Language: Python - Size: 38 MB - Last synced at: 9 days ago - Pushed at: 9 days ago - Stars: 1 - Forks: 1
Bioconductor/RaggedExperiment
Matrix-like representations of mutation and CN data
Language: R - Size: 219 KB - Last synced at: 10 days ago - Pushed at: 10 days ago - Stars: 4 - Forks: 4
AmpliconSuite/AmpliconArchitect Fork of virajbdeshpande/AmpliconArchitect
Identify one or more connected, focally amplified genomic regions to elucidate the architecture of focal amplifications such as ecDNA.
Language: Python - Size: 885 KB - Last synced at: 23 days ago - Pushed at: 23 days ago - Stars: 9 - Forks: 11
AntonioDeFalco/SCEVAN
R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the malignant cells. It also infers the copy number profile of malignant cells, identifies subclonal structures and analyses the specific and shared alterations of each subpopulation.
Language: HTML - Size: 63 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 100 - Forks: 25
PoisonAlien/varscan_accessories
accessory scripts for processing varscan somatic/copynumber outputs.
Language: Python - Size: 9.77 KB - Last synced at: 3 days ago - Pushed at: over 7 years ago - Stars: 9 - Forks: 10
CompEpigen/ezASCAT
Conveniently perform ASCAT copy-number analysis from Tumor-Normal or Tumor only BAM files in R
Language: R - Size: 6.61 MB - Last synced at: 12 months ago - Pushed at: over 3 years ago - Stars: 10 - Forks: 2
sebastian-gregoricchio/SPACCa
Snakemake Pipeline for the Analyses of ChIP-seq data in Cancer samples
Language: Python - Size: 4.63 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0
ICBI/CINdex
CINdex Bioconductor package. Read more here: https://www.bioconductor.org/packages/release/bioc/html/CINdex.html
Language: R - Size: 12.1 MB - Last synced at: about 1 year ago - Pushed at: about 4 years ago - Stars: 1 - Forks: 0
