lifebit-ai / DeepVariantLinks
Deep Variant as a Nextflow pipeline
☆30Updated 5 years ago
Alternatives and similar repositories for DeepVariant
Users that are interested in DeepVariant are comparing it to the libraries listed below
Sorting:
- See the main fork of this repository here >>>☆38Updated 7 months ago
- A nextflow implementation of Kallisto & Sleuth RNA-Seq Tools☆23Updated 7 years ago
- Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…☆45Updated 3 years ago
- Gene Fusion Visualiser☆51Updated 2 years ago
- Decrypting somatic mutation patterns to reveal the evolution of cancer☆56Updated 4 years ago
- Opossum is a tool to pre-process RNA-seq reads prior to variant calling.☆28Updated 7 years ago
- OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data☆54Updated last month
- CICERO: a versatile method for detecting complex and diverse driver fusions using cancer RNA sequencing data.☆41Updated 2 weeks ago
- Snakemake-based workflow for detecting structural variants in genomic data☆80Updated 9 months ago
- Haplotype, isoform and gene level expression analysis using multi-mapping RNA-seq reads☆68Updated last year
- Remove primer sequence from BAM alignments by soft-clipping☆31Updated 6 years ago
- Code associated with 2019 manuscript entitled "Transcript expression-aware annotation improves rare variant discovery and interpretation…☆34Updated 3 years ago
- Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer☆56Updated last week
- Method for detecting STR expansions from short-read sequencing data☆63Updated 3 years ago
- Identifying recurrent mutations in cancer☆39Updated 4 years ago
- Universal RObust Peak Annotator☆16Updated last year
- Workflows for processing RNA data for germline short variant discovery with GATK (v3+v4) and related tools☆54Updated 5 years ago
- SNV expectation maximisation based mutation calling algorithm aimed at detecting somatic mutations in paired (tumour/normal) cancer sampl…☆63Updated 7 months ago
- A Nextflow-based pipeline for comprehensive analyses of long non-coding RNAs from RNA-seq datasets☆84Updated 3 years ago
- FusionInspector code☆58Updated 3 months ago
- Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)☆41Updated 3 months ago
- Deconvolving tumor purity and ploidy by integrating copy number alterations and loss of heterozygosity☆40Updated 8 years ago
- BAMscale is a one-step tool for either 1) quantifying and normalizing the coverage of peaks or 2) generated scaled BigWig files for easy …☆72Updated last year
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆53Updated 3 years ago
- RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…☆67Updated 3 years ago
- Tools to handle reads sequenced with unique molecular identifiers (UMIs).☆30Updated 8 years ago
- Tumor Mutational Burden☆63Updated 4 months ago
- Merging paired-end reads and removing adapters☆30Updated 5 years ago
- An automated RNA-seq pipeline using Nextflow☆37Updated last year
- Multi-sample somatic variant caller☆52Updated 3 years ago