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 6 months ago
• biocommons / bioutils
  provides common tools and lookup tables used primarily by the hgvs and uta packages
  ☆24Updated 3 months ago
• kundajelab / training_camp
  Genetics training camp
  ☆21Updated 5 years ago
• related-sciences / gwas-analysis
  GWAS data analysis experiments
  ☆24Updated 5 years ago
• bioforensics / rsidx
  Library for indexing VCF files for random access searches by rsID
  ☆17Updated 5 months ago
• broadinstitute / wdl-runner
  Easily run WDL workflows on GCP
  ☆14Updated 4 years ago
• dnanexus / wdlTools
  WDL tools for parsing, type-checking, and more
  ☆27Updated 3 months ago
• gogetdata / ggd-cli
  The command-line interface to GGD
  ☆43Updated 3 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
• jnoms / virID
  Viral Identification and Discovery - A viral characterization pipeline built in Nextflow.
  ☆11Updated 5 years ago
• dancooke / starfish
  Intersect multiple VCF files with haplotype awareness
  ☆25Updated 4 years ago
• clara-parabricks-workflows / parabricks-wdl
  Accelerated genomics workflows in the Workflow Description Language
  ☆35Updated last week
• fulcrumgenomics / pybedlite
  Lightweight Python interfaces for reading, writing, and querying genomic regions (BED)
  ☆14Updated last month
• EGA-archive / ont2cram
  Oxford Nanopore HDF/Fast5 to CRAM conversion tool
  ☆22Updated 5 years ago
• cannin / snp_plotter
  snp.plotter is an R package that creates publishable-quality plots of p-values using single SNP and/or haplotype data.
  ☆20Updated last year
• dongxuemin666 / RNA-combine
  RNA-seq data comprehensive data analysis toolbox
  ☆19Updated 3 years ago
• statgen / fivex
  Interactive eQTL visualizations
  ☆13Updated 3 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
• atgu / GWASpy
  GWAS QC, PCA, haplotype phasing, genotype imputation
  ☆20Updated 4 months ago
• broadinstitute / firepony
  Efficient base quality score recalibrator for NGS data
  ☆24Updated 10 years ago
• snakemake / snakemake-workflow-catalog
  A statically generated catalog of available Snakemake workflows
  ☆36Updated last week
• broadinstitute / genepy
  Genepy is an open source utils package covering a range of useful functions for large scale genomics data analysis in python
  ☆21Updated 2 years ago
• jnovembre / BSD-QBio6
  UChicago BSD Quantitative Bootcamp 2020
  ☆11Updated 4 years ago
• brentp / fishers_exact_test
  Fishers Exact Test for Python (Cython)
  ☆66Updated 9 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
• gatk-workflows / gatk4-jupyter-notebook-tutorials
  This repository contains Jupyter Notebooks containing GATK Best Practices Workflows
  ☆26Updated 6 years ago
• gmcvicker / draw_genes
  A flexible python program for generating figures from regions of the genome.
  ☆13Updated 6 years ago
• cancerit / cgpBigWig
  BigWig manpulation tools using libBigWig and htslib
  ☆30Updated last year
• vsbuffalo / snakemake-tutorial
  Snakemake tutorial materials
  ☆19Updated 5 years ago
• Illumina / gvcfgenotyper
  A utility for merging and genotyping Illumina-style GVCFs.
  ☆33Updated 6 years ago