Alternatives and similar repositories for inDelphi-model

Users that are interested in inDelphi-model are comparing it to the libraries listed below

• deeptools / pyBigWig
  A python extension for quick access to bigWig and bigBed files
  ☆239Updated 3 weeks ago
• mikessh / vdjtools
  [Deprecated, see https://github.com/antigenomics/mirpy and other tools @antigenomics] Post-analysis of immune repertoire sequencing data
  ☆142Updated last year
• kundajelab / bpnet
  Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them
  ☆174Updated 3 months ago
• GangCaoLab / CoolBox
  Jupyter notebook based genomic data visualization toolkit.
  ☆249Updated 2 months ago
• broadinstitute / ABC-Enhancer-Gene-Prediction
  Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
  ☆246Updated last week
• htseq / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆107Updated last week
• mdozmorov / HiC_data
  A (continuously updated) collection of references to Hi-C data. Predominantly human/mouse Hi-C data, with replicates.
  ☆201Updated last week
• mckennalab / FlashFry
  FlashFry: The rapid CRISPR target site characterization tool
  ☆79Updated last year
• aryeelab / guideseq
  Analysis pipeline for the GUIDE-seq assay.
  ☆81Updated 2 years ago
• maximilianh / crisporWebsite
  All source code of the crispor.org website
  ☆87Updated this week
• rajewsky-lab / mirdeep2
  Discovering known and novel miRNAs from small RNA sequencing data
  ☆158Updated last month
• FunctionLab / ExPecto
  predicting expression effects of human genome variants ab initio from sequence
  ☆132Updated last year
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆138Updated 5 years ago
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆153Updated last year
• libnano / primer3-py
  Simple oligo analysis and primer design
  ☆190Updated 2 weeks ago
• ANHIG / IMGTHLA
  Github for files currently published in the IPD-IMGT/HLA FTP Directory hosted at the European Bioinformatics Institute
  ☆250Updated 3 weeks ago
• tkzeng / Pangolin
  Pangolin is a deep-learning method for predicting splice site strengths.
  ☆85Updated last year
• FunctionLab / sei-framework
  code to run sei and obtain sei and sequence class predictions
  ☆111Updated 3 years ago
• griffithlab / pVACtools
  ☆167Updated 2 weeks ago
• Weeks-UNC / shapemapper2
  Public repository for ShapeMapper 2 releases
  ☆41Updated last month
• snugel / cas-offinder
  An ultrafast and versatile algorithm that searches for potential off-target sites of CRISPR/Cas-derived RNA-guided endonucleases.
  ☆95Updated 3 years ago
• sebriois / biomart
  Python biomart API
  ☆69Updated 2 years ago
• simon-anders / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆129Updated 5 years ago
• nf-core / methylseq
  Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark/bwa-meth + MethylDackel or bwa-mem + rastair
  ☆187Updated 2 weeks ago
• CompEpigen / figeno
  Tool for plotting sequencing data along genomic coordinates.
  ☆335Updated last month
• virajbdeshpande / AmpliconArchitect
  AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and …
  ☆157Updated last year
• oncokb / oncokb-annotator
  Annotates variants in MAF with OncoKB annotation.
  ☆140Updated last month
• antigenomics / vdjdb-db
  🗂️ [vdjdb.com is up and running!] Git-based TCR database storage & management. Submissions welcome!
  ☆150Updated this week
• FRED-2 / OptiType
  Precision HLA typing from next-generation sequencing data
  ☆208Updated last year
• YangLab / CIRCexplorer2
  circular RNA analysis toolset
  ☆87Updated last year