Roth-Lab / pycloneLinks
Probabilistic model for inferring clonal population structure from deep NGS sequencing.
☆112Updated 5 years ago
Alternatives and similar repositories for pyclone
Users that are interested in pyclone are comparing it to the libraries listed below
Sorting:
- ☆80Updated 7 months ago
- ☆117Updated 2 years ago
- ☆120Updated 2 years ago
- A modular, containerized pipeline for ATAC-seq data processing☆60Updated last month
- A quickstart tool for AmpliconArchitect. Performs all preliminary steps (alignment, CNV calling, seed interval detection) required prior …☆73Updated last month
- 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 3 months ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆98Updated 4 years ago
- ☆90Updated 4 months ago
- Microsatellite instability (MSI) detection for tumor only data.☆111Updated last year
- Fast and accurate in silico inference of HLA genotypes from RNA-seq☆147Updated last year
- Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)☆75Updated 2 years ago
- nextNEOpi: a comprehensive pipeline for computational neoantigen prediction☆79Updated 5 months ago
- STAR based ENCODE Long RNA-Seq processing pipeline☆96Updated 4 years ago
- SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations o…☆113Updated 3 weeks ago
- Genomic Identification of Significant Targets in Cancer (GISTIC), version 2☆53Updated 3 years ago
- Dynamics analysis of Alternative PolyAdenylation from RNA-seq☆63Updated 2 years ago
- ☆39Updated 5 years ago
- Microsatellite Instability (MSI) detection using high-throughput sequencing data.☆113Updated 7 months ago
- Microsatellite Analysis for Normal-Tumor InStability☆76Updated 3 years ago
- ☆72Updated 2 years ago
- An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)☆120Updated last month
- Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools☆81Updated 4 years ago
- CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots☆96Updated last year
- Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…☆77Updated 2 years ago
- Links to ATAC-seq analysis tools☆71Updated 4 years ago
- SNV calling from single cell sequencing☆114Updated last year
- Inferring and visualizing clonal evolution in multi-sample cancer sequencing☆148Updated 5 years ago
- Reference data: BED files, genes, transcripts, variations.☆88Updated 7 years ago
- HMMRATAC peak caller for ATAC-seq data☆99Updated last year
- Assignment of known mutational signatures to individual samples and individual somatic mutations☆66Updated this week