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The Top 17 Genome Cancer Genomics Open Source Projects

Open source projects categorized as Genome Cancer Genomics
Categories > Science > Cancer Genomics
Categories > Science > Genome
Awesome Cancer Variant Databases ⭐ 284
A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.
most recent commit 6 months ago
Ideogram ⭐ 265
Chromosome visualization for the web
dependent packages 8total releases 76most recent commit 3 months agonpm ideogram} Downloads
Pygeno ⭐ 242
Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs
total releases 18most recent commit 4 years ago
Pcgr ⭐ 234
Personal Cancer Genome Reporter (PCGR)
most recent commit 6 months ago
Lancet ⭐ 145
Microassembly based somatic variant caller for NGS data
most recent commit 2 years ago
Sigprofilerextractor ⭐ 132
SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities in each sample, and the probability for each signature to cause a specific mutation type in a cancer sample. The tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.
dependent packages 3total releases 50most recent commit 5 months agopypi SigProfilerExtractor} Downloads
Sigprofilermatrixgenerator ⭐ 91
SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations only to parts for the genome (e.g., exome or a custom BED file). The tool seamlessly integrates with other SigProfiler tools.
dependent packages 10total releases 102most recent commit 3 months agopypi SigProfilerMatrixGenerator} Downloads
Agfusion ⭐ 46
Python package to annotate and visualize gene fusions.
dependent packages 1total releases 38most recent commit a year agopypi agfusion} Downloads
Genome Nexus ⭐ 38
Backend server for Genome Nexus
most recent commit 4 months ago
Sigprofilersimulator ⭐ 18
SigProfilerSimulator allows realistic simulations of mutational patterns and mutational signatures in cancer genomes. The tool can be used to simulate signatures of single point mutations, double point mutations, and insertion/deletions. Further, the tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.
most recent commit 7 months ago
Sigprofilermatrixgeneratorr ⭐ 17
R wrapper for utilizing the SigProfilerMatrixGenerator framework
most recent commit a year ago
Accucopy ⭐ 13
Accucopy is a computational method that infers Allele-specific Copy Number alterations from low-coverage low-purity tumor sequencing Data.
most recent commit 9 months ago
Sigprofilerextractorr ⭐ 11
An R wrapper for SigProfilerExtractor that allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities in each sample, and the probability for each signature to cause a specific mutation type in a cancer sample. The tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.
most recent commit a year ago
The Broad Institute Single Cell Rna Seq Data Set ⭐ 9
Visualize cancer genomes with FAIR single-cell RNA-seq data
most recent commit 2 years ago
Vicaller ⭐ 8
A software to detect virome-wide integrations
most recent commit 3 years ago
Virtual Normal Correction ⭐ 6
Set of commandline tools for analysis of tumor variants without a matching normal. Method described in Genome Research: http://genome.cshlp.org/content/25/9/1382.full
most recent commit 2 years ago
Rdxon ⭐ 5
Reference-free FASTQ filter for rare germline and somatic variants
most recent commit 9 months ago
The 4 Most Depended On Genome Cancer Genomics Open Source Projects
Ideogram ⭐ 265
Chromosome visualization for the web
dependent packages 8total releases 76latest release September 05, 2023most recent commit 3 months agonpm ideogram} Downloads
Agfusion ⭐ 46
Python package to annotate and visualize gene fusions.
dependent packages 1total releases 38latest release February 10, 2023most recent commit a year agopypi agfusion} Downloads
The 5 Latest Releases In Genome Cancer Genomics Open Source Projects
Ideogram ⭐ 265
Chromosome visualization for the web
dependent packages 8total releases 76latest release September 05, 2023most recent commit 3 months agonpm ideogram} Downloads
Agfusion ⭐ 46
Python package to annotate and visualize gene fusions.
dependent packages 1total releases 38latest release February 10, 2023most recent commit a year agopypi agfusion} Downloads
Pygeno ⭐ 242
Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs
total releases 18latest release December 15, 2021most recent commit 4 years ago
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