ChrisMaherLab / INTEGRATE-Neo
☆19Updated 7 years ago
Alternatives and similar repositories for INTEGRATE-Neo:
Users that are interested in INTEGRATE-Neo are comparing it to the libraries listed below
- Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.☆28Updated 4 years ago
- Filters for false-positive mutation calls in NGS☆30Updated 5 years ago
- cnv-seq with custom bugfix☆10Updated 12 years ago
- Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers☆15Updated 6 years ago
- Clonality inference in multiple tumor samples using phylogeny☆13Updated 7 years ago
- High-intensity sequencing reveals the sources of plasma circulating cell-free DNA variants☆22Updated 4 years ago
- Detecting somatic mutations and predicting tumor-specific neo-antigens☆28Updated 3 years ago
- Fork of the Polysolver project☆31Updated 5 years ago
- All-FIT - Allele-Frequency-based Imputation of Tumor Purity☆17Updated 5 years ago
- ☆13Updated 7 years ago
- Main repository for Drews et al. (Nature, 2022)☆39Updated last year
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆30Updated last year
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆29Updated 6 years ago
- Fork of https://bitbucket.org/mcgranahanlab/lohhla☆17Updated 5 years ago
- SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA☆27Updated 4 years ago
- Detection of Circular RNA and Fusions from RNA-Seq☆32Updated 6 years ago
- ChIP-seq DC and QC Pipeline☆34Updated 4 years ago
- This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …☆33Updated 8 months ago
- predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data☆26Updated last year
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago
- Clonality Inference in Multiple Tumor Samples using Phylogeny☆14Updated 9 years ago
- Scripts involved in our workflow for detecting CNVs from WGS data using read depth-based methods☆46Updated 2 years ago
- A statistical tool to detect differential alternative splicing events using single-cell RNA-seq☆22Updated last year
- Advanced plotting functions for CNV data generated by CNV-Seq and Control Freec☆13Updated 4 years ago
- ☆15Updated last year
- BIC@MSKCC Variants Pipeline☆24Updated last year
- A flexible framework to annotate and prioritize cancer somatic mutations.☆8Updated 7 years ago
- Comprehensive genome-wide visualization of absolute copy number and copy neutral variations☆29Updated 5 years ago
- ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…☆21Updated 2 years ago
- A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…☆31Updated 3 years ago