Alternatives and similar repositories for gtfparse

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

• sebriois / biomart
  Python biomart API
  ☆69Updated 2 years ago
• jrderuiter / pybiomart
  A simple pythonic interface to biomart.
  ☆57Updated 5 years ago
• konstantint / pyliftover
  Pure-python implementation of UCSC liftOver genome coordinate conversion
  ☆101Updated last year
• kircherlab / CADD-scripts
  CADD scripts release for offline scoring. For more information about CADD, please visit our website
  ☆90Updated 3 months ago
• skrakau / PureCLIP
  Capturing protein-RNA interaction footprints from single-nucleotide CLIP-seq data
  ☆32Updated 4 years ago
• phageghost / python-genome-browser
  Tools for making plots of genomic datasets in a genome-browser-like format
  ☆33Updated last year
• nf-core / airrflow
  B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework
  ☆74Updated this week
• pachterlab / seqspec
  machine-readable file format for genomic library sequence and structure
  ☆126Updated 4 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…
  ☆124Updated 4 months ago
• urmi-21 / pyrpipe
  Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.
  ☆84Updated 4 years ago
• aryeelab / guideseq
  Analysis pipeline for the GUIDE-seq assay.
  ☆81Updated 2 years ago
• BUStools / bustools
  Tools for working with BUS files
  ☆102Updated 8 months ago
• r-bioinformatics / edgePy
  A Python implementation of edgeR for differential expression analysis
  ☆104Updated 6 years ago
• maximilianh / crisporWebsite
  All source code of the crispor.org website
  ☆87Updated this week
• vanallenlab / comut
  CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots
  ☆96Updated last year
• sheynkman-lab / Long-Read-Proteogenomics
  A workflow for enhanced protein isoform detection through integration of long-read RNA-seq and mass spectrometry-based proteomics.
  ☆50Updated 3 years ago
• MathOnco / NeoPredPipe
  Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.
  ☆114Updated last year
• mckennalab / FlashFry
  FlashFry: The rapid CRISPR target site characterization tool
  ☆79Updated last year
• jhkorhonen / MOODS
  MOODS: Motif Occurrence Detection Suite
  ☆113Updated 2 years ago
• igvteam / igv-notebook
  Module for embedding igv.js in an IPython notebook
  ☆80Updated 11 months 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
• tsailabSJ / guideseq
  Analysis pipeline for the GUIDE-seq assay.
  ☆29Updated 6 months ago
• htseq / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆107Updated this week
• 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
• alexfields / ORF-RATER
  Regression-based annotation of protein-coding sequences from ribosome profiling data
  ☆32Updated 5 years ago
• tkzeng / Pangolin
  Pangolin is a deep-learning method for predicting splice site strengths.
  ☆85Updated last year
• bxlab / bx-python
  Tools for manipulating biological data, particularly multiple sequence alignments
  ☆159Updated last month
• dohlee / metheor
  Ultrafast DNA methylation heterogeneity calculation from bisulfite alignments (Lee et al., PLOS Computational Biology. 2023)
  ☆49Updated 5 months ago
• wckdouglas / diffexpr
  Porting DESeq2 into python via rpy2
  ☆67Updated 2 years ago
• mlbendall / telescope
  Quantification of transposable element expression using RNA-seq
  ☆81Updated last year