The EnsembleVariantCallingPipeline takes files in FASTQ or BAM format and performs SNV and INDEL variant calling from 4 variant callers (Mutect2, Strelka2, Varscan2, MuSE) and indel variant calling from 3 variant callers (Mutect2, Strelka2, Varscan2).
☆16Jul 24, 2025Updated last year
Alternatives and similar repositories for EnsembleVariantCallingPipeline
Users that are interested in EnsembleVariantCallingPipeline are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- R wrapper for utilizing the SigProfilerMatrixGenerator framework☆20Jan 29, 2026Updated 9 months ago
- An R wrapper for running the SigProfilerPlotting framework☆10Jan 29, 2026Updated 9 months ago
- SigProfilerPlotting provides a standard tool for displaying all types of mutational signatures as well as all types of mutational pattern…☆52Updated this week
- SigProfilerTopography allows evaluating the effect of chromatin organization, histone modifications, transcription factor binding, DNA re…☆25Sep 28, 2026Updated last month
- SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations o…☆123Updated this week
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- SigProfilerSimulator allows realistic simulations of mutational patterns and mutational signatures in cancer genomes. The tool can be use…☆22Jul 1, 2026Updated 4 months ago
- Tool for analyzing the inter-mutational distances between SNV-SNV and INDEL-INDEL mutations. Tool separates mutations into clustered and …☆15Jun 18, 2026Updated 4 months ago
- Python function for TMB snake plots☆16Feb 12, 2026Updated 8 months ago
- SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the n…☆187Sep 29, 2026Updated last month
- SigProfilerSingleSample allows attributing a known set of mutational signatures to an individual sample. The tool identifies the activity…☆23Jan 17, 2025Updated last year
- Assignment of known mutational signatures to individual samples and individual somatic mutations☆80Aug 26, 2026Updated 2 months ago
- ASCETIC (Agony-baSed Cancer EvoluTion InferenCe) is a novel framework for the inference of a set of statistically significant temporal pa…☆12Apr 18, 2025Updated last year
- Single cell somatic genotyper☆10Sep 28, 2022Updated 4 years ago
- Map single-cell transcriptomes to copy number evolutionary trees.☆14Aug 18, 2024Updated 2 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- a bioinformatics tool for simulating single-cell genome sequencing data☆10Dec 19, 2019Updated 6 years ago
- A set of Pyro models and functions to infer CNA from scRNA-seq data☆11Aug 14, 2023Updated 3 years ago
- ☆10Jul 19, 2024Updated 2 years ago
- highly-efficient & lightweight mutation signature matrix aggregation☆19Jan 12, 2022Updated 4 years ago
- An R package for extracting mutational signatures from vcf files☆11Feb 13, 2025Updated last year
- ☆10Mar 11, 2025Updated last year
- LACE 2.0 is a new release of the LACE R Bioconductor package, which provides an interactive user interface to perform clonal evolution an…☆16Apr 7, 2026Updated 7 months ago
- Breakpointer is a fast algorithm to locate breakpoints of structural variants from single-end reads produced by next-generation sequencin…☆10May 2, 2014Updated 12 years ago
- Quality control for phylogenetic analyses☆13Updated this week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Detect key Units in mosaic Tandem Repeats from representative reads from the same locus☆10Aug 2, 2023Updated 3 years ago
- scSNV Mapping tool for 10X Single Cell Data☆26Dec 19, 2025Updated 10 months ago
- A pipeline for Smooth-seq data analysis.☆10Sep 23, 2021Updated 5 years ago
- Data Structures for Bioinformatics - LM Bioinformatics - University of Rome Tor Vergata☆12Oct 29, 2026Updated last week
- Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…☆44Apr 18, 2024Updated 2 years ago
- ☆17Sep 28, 2022Updated 4 years ago
- ☆16May 13, 2022Updated 4 years ago
- MuSiCa - Mutational Signatures in Cancer☆22Dec 23, 2023Updated 2 years ago
- deconvolution for RNAseq and bisulfite sequencing☆12Aug 17, 2020Updated 6 years ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- A single-cell RNAseq differential expression analysis approach in case-control study☆10Mar 6, 2022Updated 4 years ago
- single-cell analysis workflows for double phosphoramidite barcode and UMI Correction (scCOLOR-seq)☆13Jul 13, 2023Updated 3 years ago
- This is the repository for SeCNV, a single cell copy number profiling tool.☆12Dec 12, 2024Updated last year
- SV clustering☆32Jul 5, 2021Updated 5 years ago
- MultiGATE is a novel method that utilizes a two-level graph attention auto-encoder to integrate multi-modality and spatial information ef…☆13Nov 10, 2025Updated 11 months ago
- Discovering copy number signatures from TCGA and new cohorts.☆10Feb 3, 2023Updated 3 years ago
- ☆25Apr 29, 2018Updated 8 years ago