slagtermaarten / LOHHLAView external linksLinks
Fork of https://bitbucket.org/mcgranahanlab/lohhla
☆18Feb 19, 2020Updated 5 years ago
Alternatives and similar repositories for LOHHLA
Users that are interested in LOHHLA are comparing it to the libraries listed below
Sorting:
- BAMixChecker: A fast and efficient tool for sample matching checkup☆15Jun 12, 2022Updated 3 years ago
- Fork of the Polysolver project☆33Nov 21, 2019Updated 6 years ago
- Detecting somatic mutations and predicting tumor-specific neo-antigens☆29Aug 10, 2021Updated 4 years ago
- CNApp represents the first web tool to perform a comprehensive and integrative analysis of copy number alterations (CNAs) in a user-frien…☆20Jan 17, 2020Updated 6 years ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆32Jul 27, 2023Updated 2 years ago
- Somatic point mutation caller☆17Jul 8, 2016Updated 9 years ago
- iAnnotateSV is a Python library and command-line software toolkit to annotate and visualize structural variants detected from Next Genera…☆16Dec 31, 2025Updated last month
- Short reads aligner for NIPT/CNV☆16Oct 10, 2018Updated 7 years ago
- All-FIT - Allele-Frequency-based Imputation of Tumor Purity☆18Oct 5, 2019Updated 6 years ago
- xHLA: Fast and accurate HLA typing from short read sequence data☆113Oct 13, 2023Updated 2 years ago
- Easy Copy Number !☆21Aug 27, 2025Updated 5 months ago
- ABSOLUTE source code that works with allelic copy ratio on both hg19 and hg38☆13Nov 5, 2025Updated 3 months ago
- Workflow: Convert CONTROL-freec output to GISTIC2☆10Apr 20, 2021Updated 4 years ago
- ☆11Jun 14, 2023Updated 2 years ago
- trackc aims to produce beautiful genome tracks that are highly customizable☆16Jan 21, 2026Updated 3 weeks ago
- Clinical Variant Annotation Pipeline☆10Apr 21, 2020Updated 5 years ago
- ☆12Nov 21, 2023Updated 2 years ago
- NeoDisc - A computational pipeline for the identification and prioritization of immunogenic tumor-specific HLA-I and -II antigens from ge…☆13Oct 8, 2024Updated last year
- ☆23Nov 28, 2025Updated 2 months ago
- Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.☆115Sep 2, 2024Updated last year
- Clonality inference in multiple tumor samples using phylogeny☆13Sep 12, 2017Updated 8 years ago
- Conveniently perform ASCAT copy-number analysis from Tumor-Normal or Tumor only BAM files in R☆12Dec 6, 2021Updated 4 years ago
- ☆11Apr 25, 2024Updated last year
- Deconvolving tumor purity and ploidy by integrating copy number alterations and loss of heterozygosity☆40Jul 19, 2017Updated 8 years ago
- HATCHet (Holistic Allele-specific Tumor Copy-number Heterogeneity) is an algorithm that infers allele and clone-specific CNAs and WGDs jo…☆70Feb 26, 2025Updated 11 months ago
- Singularity port of HLA typing based on an input exome BAM file and is currently infers infers alleles for the three major MHC class I (…☆14Jan 15, 2017Updated 9 years ago
- CALDER (Cancer Analysis of Longitudinal Data through Evolutionary Reconstruction) reconstructs evolutionary trees from longitudinal bulk …☆15Nov 28, 2023Updated 2 years ago
- Aggregation and analyses of rare CNVs across diseases☆15Jan 25, 2023Updated 3 years ago
- Decrypting somatic mutation patterns to reveal the evolution of cancer☆56Mar 10, 2021Updated 4 years ago
- An R package for predicting HR deficiency from mutation contexts☆30Feb 13, 2025Updated last year
- Model-based tumour subclonal deconvolution using population genetics☆34Dec 2, 2025Updated 2 months ago
- Probabilistic HLA typing☆35Aug 31, 2019Updated 6 years ago
- Utility functions for FACETS☆39Oct 24, 2025Updated 3 months ago
- Draw Circos in Python☆31Sep 19, 2022Updated 3 years ago
- Simple matching of HTS samples based on HLA typing☆13Jan 4, 2017Updated 9 years ago
- ☆15Dec 29, 2025Updated last month
- A toolkit to calculate polygenic scores using PLINK2, PRS-CS, RapidoPGS, or PRSice2.☆15Aug 16, 2024Updated last year
- Detects human contamination in bam files☆16Sep 10, 2020Updated 5 years ago
- ☆13Sep 18, 2017Updated 8 years ago