MathOnco / NeoPredPipeLinks
Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.
☆114Updated last year
Alternatives and similar repositories for NeoPredPipe
Users that are interested in NeoPredPipe are comparing it to the libraries listed below
Sorting:
- Fast and accurate in silico inference of HLA genotypes from RNA-seq☆153Updated last year
- Microsatellite Instability (MSI) detection using high-throughput sequencing data.☆115Updated 10 months 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 5 months ago
- ☆167Updated 2 weeks ago
- ☆120Updated 2 years ago
- Analysis pipeline for the GUIDE-seq assay.☆81Updated 2 years ago
- ☆48Updated 3 years ago
- cfDNApipe: A comprehensive quality control and analysis pipeline for cell-free DNA high-throughput sequencing data☆75Updated 3 years ago
- Microsatellite instability (MSI) detection for tumor only data.☆112Updated last year
- Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)☆75Updated 2 years ago
- Convert Counts to Fragments per Kilobase of Transcript per Million (FPKM)☆63Updated 4 years ago
- Quantification of transposable element expression using RNA-seq☆82Updated last year
- [Deprecated, see https://github.com/antigenomics/mirpy and other tools @antigenomics] Post-analysis of immune repertoire sequencing data☆142Updated last year
- circular RNA analysis toolset☆87Updated last year
- a toolset for mining multi-dimensional features of the translatome with ribosome profiling data☆18Updated 6 months ago
- HemTools: a collection of NGS pipelines and bioinformatic analyses☆74Updated last month
- CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots☆96Updated last year
- Capturing protein-RNA interaction footprints from single-nucleotide CLIP-seq data☆32Updated 4 years ago
- Ribo-seq TIS Hunter, predicting translation initiation sites and ORFs using riboseq data☆43Updated 3 months ago
- nextNEOpi: a comprehensive pipeline for computational neoantigen prediction☆83Updated 8 months ago
- REDItools are python scripts to investigate RNA editing at genomic scale.☆69Updated 6 months ago
- Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools☆84Updated 4 years ago
- optimization of ribosome P-site positioning in ribosome profiling data☆59Updated 11 months ago
- HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.☆107Updated this week
- CADD scripts release for offline scoring. For more information about CADD, please visit our website☆90Updated 3 months ago
- ☆60Updated 6 months ago
- ☆158Updated 8 months ago
- A quickstart tool for AmpliconArchitect. Enables all steps (alignment, CNV calling, seed interval detection) prior to running AmpliconArc…☆77Updated this week
- Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…☆78Updated 2 years ago
- Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed in…☆124Updated 4 months ago