Alternatives and similar repositories for PySnpTools

Users that are interested in PySnpTools are comparing it to the libraries listed below

• fastlmm / FaST-LMM
  Python version of Factored Spectrally Transformed Linear Mixed Models
  ☆54Updated 8 months ago
• kundajelab / training_camp
  Genetics training camp
  ☆21Updated 5 years ago
• biocommons / bioutils
  provides common tools and lookup tables used primarily by the hgvs and uta packages
  ☆24Updated 3 weeks ago
• atgu / GWASpy
  GWAS QC, PCA, haplotype phasing, genotype imputation
  ☆20Updated 5 months ago
• broadinstitute / firepony
  Efficient base quality score recalibrator for NGS data
  ☆24Updated 10 years ago
• clara-parabricks-workflows / Parabricks-WDL-Workflows
  Accelerated genomics workflows in the Workflow Description Language
  ☆35Updated 2 weeks ago
• related-sciences / gwas-analysis
  GWAS data analysis experiments
  ☆24Updated 5 years ago
• gatk-workflows / gatk4-jupyter-notebook-tutorials
  This repository contains Jupyter Notebooks containing GATK Best Practices Workflows
  ☆26Updated 6 years ago
• diazale / 1KGP_dimred
  Interactive demonstration of how to use PCA, t-SNE, and UMAP on genotype data from the Thousand Genome Project.
  ☆20Updated 5 years ago
• statgen / fivex
  Interactive eQTL visualizations
  ☆13Updated 3 years ago
• brentp / fishers_exact_test
  Fishers Exact Test for Python (Cython)
  ☆66Updated 10 months ago
• jeremymcrae / clinical-filter
  filtering trio-based genetic variants in VCFs for clinical review
  ☆21Updated 5 years ago
• tgen / CovGen
  Creates a target specific exome_full192.coverage.txt file required by MutSig
  ☆21Updated 4 years ago
• dnanexus / wdlTools
  WDL tools for parsing, type-checking, and more
  ☆28Updated 5 months ago
• bioturing / hera-t
  Hera-T, a fast and accurate tool for estimating gene abundances in single cell data generated by the 10X-Chromium protocol
  ☆18Updated 4 years ago
• fulcrumgenomics / fgpyo
  Quality of life improvements for Bioinformatics in Python.
  ☆31Updated this week
• quinlan-lab / pathoscore
  pathoscore evaluates variant pathogenicity tools and scores.
  ☆22Updated 3 years ago
• DataBiosphere / terra-docker
  ☆32Updated 3 weeks ago
• broadinstitute / wdl-runner
  Easily run WDL workflows on GCP
  ☆14Updated 4 years ago
• brentp / python-giggle
  python (cython) wrapper for https://github.com/ryanlayer/giggle for fast interval searching of huge datasets.
  ☆15Updated 7 years ago
• marcos-diazg / musica
  MuSiCa - Mutational Signatures in Cancer
  ☆23Updated 2 years ago
• NCBI-Hackathons / Network_SNPs
  A framework for network analysis and display of SNPs
  ☆19Updated 9 years ago
• ding-lab / somaticwrapper
  Detect somatic variants from tumor and normal WGS/WXS data
  ☆19Updated last week
• jrderuiter / geneviz
  Library for visualising genomic features in Python.
  ☆15Updated 8 years ago
• panoptes-organization / panoptes
  Monitor computational workflows in real time
  ☆74Updated last year
• dongxuemin666 / RNA-combine
  RNA-seq data comprehensive data analysis toolbox
  ☆20Updated 3 years ago
• dputhier / pygtftk
  A python package and a set of shell commands to handle GTF files
  ☆50Updated 2 weeks ago
• EGA-archive / ont2cram
  Oxford Nanopore HDF/Fast5 to CRAM conversion tool
  ☆22Updated 6 years ago
• healthdisparities / rye
  Large scale ancestry inference from PCA data
  ☆23Updated 2 years ago
• cancerit / alleleCount
  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…
  ☆44Updated 3 years ago