Roth-Lab / pyclone-viLinks
Fast method for inferring cancer clonal population structure from SNV data.
☆53Updated 3 weeks ago
Alternatives and similar repositories for pyclone-vi
Users that are interested in pyclone-vi are comparing it to the libraries listed below
Sorting:
- Battenberg R package for subclonal copynumber estimation☆87Updated last week
- An R package to time somatic mutations☆61Updated 4 years ago
- R package containing useful functions for mutational signature analysis☆81Updated this week
- Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data☆66Updated 5 years ago
- ☆38Updated 5 years ago
- Full-length transcriptome splicing and mutation analysis☆83Updated 11 months ago
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆71Updated 4 years ago
- nextNEOpi: a comprehensive pipeline for computational neoantigen prediction☆73Updated this week
- EasyFuse is a pipeline for accurate fusion gene detection from RNA-seq data.☆59Updated 5 months ago
- ☆73Updated last month
- ☆21Updated last week
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆71Updated last year
- Main repository for Drews et al. (Nature, 2022)☆41Updated last year
- In-silico method written in Python and R to determine HLA genotypes of a sample. seq2HLA takes standard RNA-Seq sequence reads in fastq f…☆49Updated last year
- T1K is a versatile methods to genotype highly polymorphic genes (e.g. KIR, HLA) with bulk or single-cell RNA-seq, WGS or WES data.☆73Updated last month
- A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.☆35Updated 3 years ago
- Mutation detection using GATK4 best practices and latest RNA editing filters resources. Works with both Hg38 and Hg19☆75Updated 10 months 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…☆45Updated 2 years ago
- Genomic coordinates of problematic genomic regions as GRanges☆39Updated 5 months ago
- QDNAseq package for Bioconductor☆50Updated 10 months ago
- Classify output of AmpliconArchitect to detect types of focal amplifications present☆19Updated this week
- FRASER - Find RAre Splicing Events in RNA-seq☆46Updated last week
- Genomic Identification of Significant Targets in Cancer (GISTIC), version 2☆51Updated 3 years ago
- Publication quality NGS track plotting☆113Updated 2 years ago
- optimization of ribosome P-site positioning in ribosome profiling data☆52Updated 3 months ago
- Demultiplexing pooled scRNA-seq data with or without genotype reference☆85Updated last month
- HMMRATAC peak caller for ATAC-seq data☆100Updated 6 months ago
- A quickstart tool for AmpliconArchitect. Performs all preliminary steps (alignment, CNV calling, seed interval detection) required prior …☆66Updated 3 weeks ago
- Single cell Nanopore sequencing data for Genotype and Phenotype☆53Updated 3 weeks ago
- Framework for Metastatic And Clonal History INtegrative Analysis☆36Updated 4 years ago