raphael-group / machinaLinks
Framework for Metastatic And Clonal History INtegrative Analysis
☆36Updated 4 years ago
Alternatives and similar repositories for machina
Users that are interested in machina are comparing it to the libraries listed below
Sorting:
- ☆81Updated 7 months ago
- processes GoT amplicon data and generates a table of metrics☆32Updated 3 years ago
- Convert 10x BAM files to the original FASTQs compatible with 10x pipelines☆66Updated last week
- ☆39Updated 5 years ago
- Code accompanying The Evolutionary history of 2,658 cancers☆46Updated 4 years ago
- An R package to time somatic mutations☆64Updated 4 years ago
- nextNEOpi: a comprehensive pipeline for computational neoantigen prediction☆81Updated 5 months ago
- ☆44Updated 7 years ago
- ☆34Updated 6 years ago
- MutSig2CV from Lawrence et al. 2014☆33Updated 5 years ago
- 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
- Dirichlet Process based methods for subclonal reconstruction of tumours☆30Updated 8 months ago
- An R package to plot maps of clone distributions in somatic evolution☆17Updated last year
- Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)☆75Updated 2 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆71Updated last year
- Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data☆67Updated 5 years ago
- mutation(barcode) caller for 10x single cell data☆45Updated 5 years ago
- CLIP-seq Analysis of Multi-mapped reads☆31Updated 4 years ago
- Public repository containing research code for the TCGA PanCanAtlas Splicing project☆42Updated 4 years ago
- CHISEL -- Copy-number Haplotype Inference in Single-cell by Evolutionary Links☆43Updated last year
- Full-length transcriptome splicing and mutation analysis☆84Updated last year
- epigenome analysis to rank transcription factors☆31Updated 2 years ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆44Updated 4 years ago
- ROSE: RANK ORDERING OF SUPER-ENHANCERS☆57Updated 2 weeks ago
- Pileup biallelic SNPs from single-cell and bulk RNA-seq data☆81Updated 3 years ago
- Fork of the Polysolver project☆33Updated 6 years ago
- ☆120Updated 2 years ago
- Genomic Identification of Significant Targets in Cancer (GISTIC), version 2☆53Updated 3 years ago
- MAnorm2 for Normalizing and Comparing ChIP-seq Samples☆32Updated 3 years ago
- A modular, containerized pipeline for ATAC-seq data processing☆61Updated 2 months ago