icbi-lab / nextNEOpi
nextNEOpi: a comprehensive pipeline for computational neoantigen prediction
☆67Updated last month
Related projects ⓘ
Alternatives and complementary repositories for nextNEOpi
- An R package to time somatic mutations☆60Updated 3 years ago
- Public repository containing research code for the TCGA PanCanAtlas Splicing project☆41Updated 3 years ago
- A toolset for profiling alternative splicing events in RNA-Seq data.☆78Updated 4 months ago
- Estimate locus specific human LINE-1 expression.☆32Updated 2 years ago
- Genomic Identification of Significant Targets in Cancer (GISTIC), version 2☆47Updated 2 years ago
- ☆70Updated 6 months ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆69Updated 5 months ago
- SNV calling from single cell sequencing☆84Updated last week
- An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)☆101Updated 4 months ago
- RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.☆36Updated 2 years ago
- Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout (MAGeCK) is a computational tool to identify important genes from the recent gen…☆26Updated 3 years ago
- Full-length transcriptome splicing and mutation analysis☆73Updated 4 months ago
- Convert Counts to Fragments per Kilobase of Transcript per Million (FPKM)☆61Updated 3 years ago
- A quickstart tool for AmpliconArchitect. Performs all preliminary steps (alignment, CNV calling, seed interval detection) required prior …☆57Updated last month
- Workflows for converting between sequence data formats☆37Updated 3 years ago
- Code and analysis pipeline for Smart-seq3 (Hagemann-Jensen et al. 2020).☆50Updated 3 years ago
- A modular, containerized pipeline for ATAC-seq data processing☆54Updated last week
- ☆103Updated last year
- optimization of ribosome P-site positioning in ribosome profiling data☆45Updated 10 months ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆94Updated 3 years ago
- A single cell RNA-seq reference map of human hematopoietic development in the bone marrow, with balanced representation of hematopoietic …☆24Updated 2 weeks ago
- mgatk: mitochondrial genome analysis toolkit☆103Updated 8 months ago
- R package containing useful functions for mutational signature analysis☆80Updated this week
- Detecting intron retention from RNA-Seq experiments☆53Updated 4 months ago
- ☆115Updated last year
- Microsatellite instability (MSI) detection for tumor only data.☆94Updated 6 months ago
- GLASS consortium☆37Updated 4 years ago
- Assignment of known mutational signatures to individual samples and individual somatic mutations☆47Updated last week
- ROSE: RANK ORDERING OF SUPER-ENHANCERS☆43Updated 3 months ago
- Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)☆74Updated last year