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The Top 23 Bioinformatics Cancer Open Source Projects

Open source projects categorized as Bioinformatics Cancer
Categories > Data Processing > Bioinformatics
Categories > Cancer
Sarek ⭐ 299
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
most recent commit 3 months ago
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
Pygeno ⭐ 242
Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs
total releases 18most recent commit 4 years ago
Mutscan ⭐ 127
Detect and visualize target mutations by scanning FastQ files directly
most recent commit 2 years ago
Sarek ⭐ 126
Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing
most recent commit 4 years ago
Genefuse ⭐ 86
Gene fusion detection and visualization
most recent commit 2 years ago
Genomicdatacommons ⭐ 80
Provide R access to the NCI Genomic Data Commons portal.
most recent commit 3 months ago
Agfusion ⭐ 46
Python package to annotate and visualize gene fusions.
dependent packages 1total releases 38most recent commit a year agopypi agfusion} Downloads
2020plus ⭐ 39
Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests
most recent commit 4 years ago
Iarc Nf ⭐ 35
List of IARC bioinformatics nextflow pipelines
most recent commit a year ago
Rnaseq_titration_results ⭐ 29
Cross-platform normalization enables machine learning model training on microarray and RNA-seq data simultaneously
most recent commit a year ago
Kg4sl ⭐ 25
Synthetic lethality (SL) is a promising gold mine for the discovery of anti-cancer drug targets. KG4SL is the first graph neural network (GNN)-based model that uses knowledge graph for SL prediction.
most recent commit 9 months ago
Beyondcell ⭐ 23
Beyondcell is a computational methodology for identifying tumour cell subpopulations with distinct drug responses in single-cell RNA-seq data and proposing cancer-specific treatments.
most recent commit 8 months ago
Fusiondirect.jl ⭐ 23
(No maintenance) Detect gene fusion directly from raw fastq files
most recent commit 7 years ago
Mageri ⭐ 19
MAGERI - Assemble, align and call variants for targeted genome re-sequencing with unique molecular identifiers
most recent commit 7 years ago
Bioinformatics ⭐ 10
A suite of bioinformatics data processing and analysis pipelines, software, and training resources for common DNA and RNA sequence analysis methods.
most recent commit 6 months ago
Trisicell ⭐ 9
Scalable tumor phylogeny inference and validation from single-cell RNA or DNA data
total releases 25most recent commit 4 months ago
Mgp1000 ⭐ 7
Nextflow bioinformatics pipeline for large-scale analysis of Multiple Myeloma genomes
most recent commit 4 months ago
Probabilistic2020 ⭐ 6
Simulates somatic mutations, and calls statistically significant oncogenes and tumor suppressor genes based on a randomization-based test
total releases 14most recent commit 5 years ago
Csurvival ⭐ 5
cSurvival: a web resource for biomarker interactions in cancer outcomes and in cell lines
most recent commit 7 months ago
Tools For Cancer Genome Analysis ⭐ 5
Installation and usage for various tools for cancer genomics
most recent commit 4 months ago
Decontaminer ⭐ 5
DecontaMiner is a tool designed and developed to investigate the presence of contaminating sequences in unmapped NGS data. It can suggest the presence of contaminating organisms in sequenced samples, that might derive either from laboratory contamination or from their biological source, and in both cases can be considered as worthy of further investigation and experimental validation. The novelty of DecontaMiner is mainly represented by its easy integration with the standard procedures of NGS da
most recent commit a year ago
Scphylo Tools ⭐ 5
a python toolkit for single-cell tumor phylogenetic analysis
total releases 5most recent commit 4 months ago
The 5 Latest Releases In Bioinformatics Cancer Open Source Projects
Scphylo Tools ⭐ 5
a python toolkit for single-cell tumor phylogenetic analysis
total releases 5latest release July 26, 2023most recent commit 4 months ago
Trisicell ⭐ 9
Scalable tumor phylogeny inference and validation from single-cell RNA or DNA data
total releases 25latest release July 21, 2023most recent commit 4 months ago
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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