Alternatives and similar repositories for CADD-scripts

Users that are interested in CADD-scripts are comparing it to the libraries listed below

• gatk-workflows / gatk4-rnaseq-germline-snps-indels
  Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools
  ☆78Updated 3 years ago
• liguowang / CrossMap
  CrossMap is a python program to lift over genome coordinates from one genome version to another.
  ☆85Updated last month
• cancer-genomics / delfi_scripts
  ☆73Updated 4 years ago
• WGLab / CancerVar
  Clinical interpretation of somatic mutations in cancer
  ☆47Updated 5 months ago
• xjtu-omics / msisensor-pro
  Microsatellite Instability (MSI) detection using high-throughput sequencing data.
  ☆110Updated 4 months ago
• sheynkman-lab / Long-Read-Proteogenomics
  A workflow for enhanced protein isoform detection through integration of long-read RNA-seq and mass spectrometry-based proteomics.
  ☆46Updated 2 years ago
• CRG-Barcelona / bwtool
  A tool for bigWig files.
  ☆119Updated 7 years ago
• ygidtu / trackplot
  trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…
  ☆93Updated 2 months ago
• GoekeLab / proActiv
  Estimation of Promoter Activity from RNA-Seq data
  ☆53Updated 3 weeks ago
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆74Updated 2 years ago
• parklab / ShatterSeek
  ☆69Updated 2 years ago
• tkzeng / Pangolin
  Pangolin is a deep-learning method for predicting splice site strengths.
  ☆76Updated last year
• mlbendall / telescope
  Quantification of transposable element expression using RNA-seq
  ☆72Updated last year
• aryeelab / guideseq
  Analysis pipeline for the GUIDE-seq assay.
  ☆78Updated 2 years ago
• LabTranslationalArchitectomics / riboWaltz
  optimization of ribosome P-site positioning in ribosome profiling data
  ☆52Updated 5 months ago
• BioinfoUNIBA / REDItools
  REDItools are python scripts to investigate RNA editing at genomic scale.
  ☆67Updated 2 weeks ago
• BioinfoUNIBA / REDItools2
  ☆58Updated 2 weeks ago
• genepi / nf-gwas
  A nextflow pipeline to perform state-of-the-art genome-wide association studies.
  ☆71Updated 4 months ago
• ENCODE-DCC / hic-pipeline
  HiC uniform processing pipeline
  ☆60Updated last year
• icbi-lab / nextNEOpi
  nextNEOpi: a comprehensive pipeline for computational neoantigen prediction
  ☆76Updated last month
• griffithlab / regtools
  Integrate DNA-seq and RNA-seq data to identify mutations that are associated with regulatory effects on gene expression.
  ☆130Updated 11 months ago
• TRON-Bioinformatics / seq2HLA
  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…
  ☆49Updated last week
• a2iEditing / RNAEditingIndexer
  A tool for the calculation of RNA-editing index for RNA seq data
  ☆43Updated last year
• smithlabcode / ribotricer
  A tool for accurately detecting actively translating ORFs from Ribo-seq data
  ☆39Updated 6 months ago
• vanheeringen-lab / gimmemotifs
  Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed in…
  ☆120Updated last year
• ratschlab / spladder
  Tool for the detection and quantification of alternative splicing events from RNA-Seq data.
  ☆108Updated last week
• dariober / bioinformatics-cafe
  Unsorted scripts for bioinformatics
  ☆61Updated 4 years ago
• AAlhendi1707 / countToFPKM
  Convert Counts to Fragments per Kilobase of Transcript per Million (FPKM)
  ☆62Updated 4 years ago
• MathOnco / NeoPredPipe
  Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.
  ☆111Updated 11 months ago
• bioinfo-pf-curie / TMB
  Tumor Mutational Burden
  ☆62Updated this week