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:
- An R package to time somatic mutations☆65Updated 5 years ago
- ☆82Updated 8 months ago
- ☆38Updated 5 years ago
- An R package to plot maps of clone distributions in somatic evolution☆17Updated last year
- processes GoT amplicon data and generates a table of metrics☆32Updated 3 years ago
- Code accompanying The Evolutionary history of 2,658 cancers☆46Updated 4 years ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆44Updated 4 years ago
- Convert 10x BAM files to the original FASTQs compatible with 10x pipelines☆66Updated last month
- RAGE-seq scripts☆18Updated 4 years ago
- Epimap processing and analysis code repository☆33Updated 3 years ago
- ☆34Updated 6 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆72Updated last year
- ☆44Updated 7 years ago
- Public repository containing research code for the TCGA PanCanAtlas Splicing project☆42Updated 4 years ago
- Next-Gen Sequencing tools from the Horvath Lab☆44Updated 3 months ago
- mutation(barcode) caller for 10x single cell data☆45Updated 5 years ago
- Repository for Cibersortx☆61Updated 4 years ago
- ROSE: RANK ORDERING OF SUPER-ENHANCERS☆58Updated last month
- nextNEOpi: a comprehensive pipeline for computational neoantigen prediction☆81Updated 6 months ago
- Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)☆75Updated 2 years ago
- MutSig2CV from Lawrence et al. 2014☆33Updated 5 years ago
- ☆48Updated 11 months ago
- epigenome analysis to rank transcription factors☆31Updated 2 years ago
- Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data☆67Updated 5 years ago
- Count HLA alleles in single-cell RNA-seq data☆62Updated 4 years ago
- ☆120Updated 2 years ago
- Pileup biallelic SNPs from single-cell and bulk RNA-seq data☆81Updated 3 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…☆50Updated 4 months ago
- RNA editing tests☆17Updated 5 years ago
- A quickstart tool for AmpliconArchitect. Enables all steps (alignment, CNV calling, seed interval detection) prior to running AmpliconArc…☆76Updated 2 weeks ago