Alternatives and similar repositories for pypiper

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

• pepkit / peppy
  Project metadata manager for PEPs in Python
  ☆37Updated 8 months ago
• brentp / python-giggle
  python (cython) wrapper for https://github.com/ryanlayer/giggle for fast interval searching of huge datasets.
  ☆16Updated 7 years ago
• mdshw5 / simplesam
  Simple pure Python SAM parser and objects for working with SAM records
  ☆64Updated 3 years ago
• lgautier / fastq-and-furious
  Efficient handling of FASTQ files from Python
  ☆51Updated last month
• loosolab / UROPA
  Universal RObust Peak Annotator
  ☆16Updated last year
• asrhou / scMatch
  scMatch: a single-cell gene expression profile annotation tool using reference datasets
  ☆24Updated 3 years ago
• czbiohub-sf / cerebra
  A tool for fast and accurate summarizing of variant calling format (VCF) files
  ☆61Updated 2 years ago
• brentp / bw-python
  python wrapper to dpryan79's bigwig library using cffi
  ☆19Updated 9 years ago
• pyranges / bamread
  Bam to Pandas DataFrame, quickly
  ☆13Updated last month
• JRowleyLab / HiCrayon
  Web-Application for the cross-visualization of HiC and ChIP-seq data.
  ☆18Updated 7 months ago
• christacaggiano / cell-free-dna-reading-list
  Important papers relating to the biology of cell free DNA
  ☆19Updated 6 years ago
• pepkit / looper
  A job submitter for Portable Encapsulated Projects
  ☆22Updated 3 months ago
• aboyle / F-seq
  A Feature Density Estimator for High-Throughput Sequence Tags
  ☆23Updated 4 years ago
• BD2KGenomics / toil-scripts
  Toil workflows for common genomic pipelines
  ☆33Updated 5 years ago
• SnakeChunks / SnakeChunks
  Modular blocks to build Snakemake workflows for reproducible NGS analyses
  ☆22Updated 5 years ago
• KenLauLab / dropkick
  Automated cell filtering for single-cell RNA sequencing data
  ☆24Updated last year
• 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
• billgreenwald / pgltools
  Paired Genomic Loci Tool Suite
  ☆30Updated 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…
  ☆45Updated 2 years ago
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 5 years ago
• cancerit / cgpBigWig
  BigWig manpulation tools using libBigWig and htslib
  ☆29Updated 10 months ago
• COMBINE-lab / pyroe
  ☆16Updated 5 months ago
• biothings / myvariant.py
  Python client for MyVariant.info web services.
  ☆23Updated 5 months ago
• brentp / fishers_exact_test
  Fishers Exact Test for Python (Cython)
  ☆65Updated 3 months ago
• bioforensics / rsidx
  Library for indexing VCF files for random access searches by rsID
  ☆17Updated last year
• tgen / CovGen
  Creates a target specific exome_full192.coverage.txt file required by MutSig
  ☆21Updated 3 years ago
• schlegelp / catheat
  Plot categorical heatmaps with seaborn
  ☆18Updated 2 years ago
• bionitio-team / bionitio-python
  Demonstrating best practices for bioinformatics command line tools
  ☆26Updated 4 years ago
• yanailab / moana
  Moana: Robust cell type classification of single-cell RNA-Seq data
  ☆24Updated 6 years ago
• guigolab / grape-nf
  An automated RNA-seq pipeline using Nextflow
  ☆37Updated 9 months ago