KarchinLab / 2020plus
Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests
☆49Updated 3 months ago
Related projects ⓘ
Alternatives and complementary repositories for 2020plus
- ☆43Updated 6 years ago
- Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data☆62Updated 4 years ago
- Identifying recurrent mutations in cancer☆37Updated 3 years ago
- Public repository containing research code for the TCGA PanCanAtlas Splicing project☆41Updated 3 years ago
- ChIP-seq DC and QC Pipeline☆34Updated 3 years ago
- RepEnrich is a method to estimate repetitive element enrichment using high-throughput sequencing data.☆26Updated 2 years ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆28Updated 6 years ago
- Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…☆26Updated 3 months ago
- Detecting intron retention from RNA-Seq experiments☆53Updated 4 months ago
- Disambiguation algorithm for reads aligned to human and mouse genomes using Tophat or BWA mem☆29Updated 6 years ago
- 2017_2018 single cell RNA sequencing Workshop UCD_UCB_UCSF☆35Updated 6 years ago
- A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.☆32Updated 3 years ago
- Define regions in the genome☆26Updated 2 years ago
- Extracting disease-specific genomic coordinates from GWAS catalog☆19Updated 4 years ago
- ☆17Updated 5 years ago
- ATAC-seq lab for BIOINF545☆25Updated 8 months ago
- 3D hotspot mutation proximity analysis tool☆46Updated last year
- GTEx analysis scripts☆20Updated 7 years ago
- ☆37Updated last year
- identifying mutational significance in cancer genomes☆60Updated 2 years ago
- ☆37Updated 4 years ago
- Snakemake based pipeline for RNA-Seq analysis☆31Updated 5 years ago
- Reference transcriptome indices build from kallisto for popular organisms☆41Updated 11 months ago
- A toolset for profiling alternative splicing events in RNA-Seq data.☆78Updated 4 months ago
- a peak-calling and differential analysis tool for replicated ChIP-Seq data☆37Updated 2 years ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆36Updated 2 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆69Updated 5 months ago
- ☆33Updated 5 years ago
- Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data☆34Updated last year
- Genomic Association Tester☆29Updated last year