Analysis pipeline for cancer sequencing data
☆112Sep 28, 2026Updated last month
Alternatives and similar repositories for superFreq
Users that are interested in superFreq are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Microassembly based somatic variant caller for NGS data☆153Jun 23, 2022Updated 4 years ago
- Detects human contamination in bam files☆16Sep 10, 2020Updated 6 years ago
- R package to organise and standardise your genomic variant calls obtained with different callers.☆11Jul 15, 2019Updated 7 years ago
- ☆11Jul 13, 2018Updated 8 years ago
- Decrypting somatic mutation patterns to reveal the evolution of cancer☆57Mar 10, 2021Updated 5 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 computational method for inferring the cancer cell fraction of tumour structural variation from whole-genome sequencing data.☆45Aug 21, 2025Updated last year
- Explore the cancer relevance of your gene list☆55Aug 11, 2026Updated 2 months ago
- iAnnotateSV is a Python library and command-line software toolkit to annotate and visualize structural variants detected from Next Genera…☆16Jun 11, 2026Updated 4 months ago
- deconstructSigs☆144Apr 24, 2023Updated 3 years ago
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆53May 20, 2022Updated 4 years ago
- Copy number calling and variant classification using targeted short read sequencing☆150Oct 6, 2026Updated last month
- Allele-Specific Quantification of Structural Variations in Cancer Genomes☆19Mar 5, 2019Updated 7 years ago
- RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes☆19Apr 2, 2020Updated 6 years ago
- Battenberg algorithm and associated implementation script☆55Oct 21, 2020Updated 6 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- ASCAT R package☆205Feb 12, 2026Updated 8 months ago
- tools for adding mutations to existing .bam files, used for testing mutation callers☆254Aug 5, 2026Updated 3 months ago
- A framework to infer mutational signatures in cancer over time☆57Jul 9, 2019Updated 7 years ago
- Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.☆166Feb 12, 2026Updated 8 months ago
- Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata☆59Feb 17, 2022Updated 4 years ago
- Personal Cancer Genome Reporter (PCGR)☆284Updated this week
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆103Sep 15, 2026Updated last month
- Mutation detection using GATK4 best practices and latest RNA editing filters resources. Works with both Hg38 and Hg19☆79Jan 13, 2026Updated 9 months ago
- R package designed to simplify structural variant analysis☆74Dec 22, 2021Updated 4 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.
- Pipeline for structural variant image curation and analysis.☆49Dec 5, 2021Updated 4 years ago
- Mutational signature analysis for low statistics SNV data☆67Aug 7, 2024Updated 2 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆62Jun 7, 2019Updated 7 years ago
- Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets☆37Jul 30, 2020Updated 6 years ago
- Clonal and subclonal Copy Number Alteration quality check integrating somatic mutation☆27Aug 31, 2026Updated 2 months ago
- R package for extracting and visualizing mutational patterns in base substitution catalogues☆107Nov 22, 2022Updated 3 years ago
- Inferring and visualizing clonal evolution in multi-sample cancer sequencing☆151Sep 9, 2020Updated 6 years ago
- Structural Variation breakpoint discovery via adaptive learning☆17Jul 6, 2023Updated 3 years ago
- An R package for inferring the subclonal architecture of tumors☆125Mar 15, 2026Updated 7 months 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.
- IndexTools is a toolkit for extremely fast NGS analysis based on index files.☆17Aug 19, 2022Updated 4 years ago
- An ensemble approach to accurately detect somatic mutations using SomaticSeq