Roth-Lab / pyclone-vi
Fast method for inferring cancer clonal population structure from SNV data.
☆50Updated 4 months ago
Related projects ⓘ
Alternatives and complementary repositories for pyclone-vi
- ☆37Updated 4 years ago
- A pipeline for identifying indel derived neoantigens using RNA-Seq data☆29Updated 2 years ago
- An R package to time somatic mutations☆60Updated 3 years ago
- Clinical interpretation of somatic mutations in cancer☆42Updated 2 years ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆28Updated 6 years ago
- Battenberg R package for subclonal copynumber estimation☆82Updated last week
- ☆70Updated 6 months ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆29Updated last month
- CADD scripts release for offline scoring. For more information about CADD, please visit our website☆74Updated last week
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆69Updated 5 months ago
- MutSig2CV from Lawrence et al. 2014☆30Updated 4 years ago
- Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…☆43Updated 2 years ago
- Documenting usage and experience with bioinformatic tools☆40Updated 9 years ago
- ☆43Updated 6 years ago
- A quickstart tool for AmpliconArchitect. Performs all preliminary steps (alignment, CNV calling, seed interval detection) required prior …☆57Updated last month
- ☆19Updated this week
- ☆45Updated 2 years ago
- Main repository for Drews et al. (Nature, 2022)☆38Updated last year
- Software to compute reproducibility and quality scores for Hi-C data☆44Updated 5 years ago
- Genomic Identification of Significant Targets in Cancer (GISTIC), version 2☆47Updated 2 years ago
- Alleloscope is a method for allele-specific copy number estimation that can be applied to single cell DNA and ATAC sequencing data (separ…☆29Updated last year
- Burden testing against public controls☆50Updated 8 months ago
- Public repository containing research code for the TCGA PanCanAtlas Splicing project☆41Updated 3 years ago
- Model-based subclonal deconvolution from bulk sequencing.☆33Updated last year
- Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue☆45Updated 3 weeks ago
- ☆17Updated 3 years ago
- CrossMap is a python program to lift over genome coordinates from one genome version to another.☆75Updated last month
- DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…☆20Updated 6 months ago
- Framework for Metastatic And Clonal History INtegrative Analysis☆34Updated 3 years ago
- ☆65Updated last year