Alternatives and similar repositories for BISB-Bootcamp-2021

Users that are interested in BISB-Bootcamp-2021 are comparing it to the libraries listed below

• complextissue / pytximport
  Feature-rich Python implementation of the tximport package for gene count estimation.
  ☆37Updated 2 weeks ago
• phageghost / python-genome-browser
  Tools for making plots of genomic datasets in a genome-browser-like format
  ☆32Updated 10 months ago
• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆63Updated 5 months ago
• COMBINE-lab / simpleaf
  A rust framework to make using alevin-fry even simpler
  ☆58Updated 5 months ago
• jrderuiter / pybiomart
  A simple pythonic interface to biomart.
  ☆56Updated 5 years ago
• czbiohub-sf / cerebra
  A tool for fast and accurate summarizing of variant calling format (VCF) files
  ☆61Updated 2 years ago
• kundajelab / ENCODE_downloader
  Downloader for ENCODE
  ☆32Updated 5 years ago
• nf-core / spatialvi
  Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcri…
  ☆66Updated last week
• regulatory-genomics / precellar
  ☆40Updated last week
• vanallenlab / comut
  CoMut is a Python library for visualizing genomic and phenotypic information via comutation plots
  ☆95Updated last year
• nf-core / scnanoseq
  Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics
  ☆49Updated 2 weeks ago
• urmi-21 / pyrpipe
  Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.
  ☆84Updated 4 years ago
• parklab / LiRA
  ☆18Updated 3 years ago
• gaolabtools / scNanoGPS
  Single cell Nanopore sequencing data for Genotype and Phenotype
  ☆53Updated 4 months ago
• genialis / RNAnorm
  Normalization of RNA-seq gene expression
  ☆101Updated 3 months ago
• mritchielab / FLAMES
  A framework for performing single-cell and bulk read full-length analysis of mutations and splicing.
  ☆45Updated last month
• igvteam / igv-notebook
  Module for embedding igv.js in an IPython notebook
  ☆78Updated 8 months ago
• LuyiTian / FLAMES
  Full-length transcriptome splicing and mutation analysis
  ☆84Updated last year
• ygidtu / trackplot
  trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…
  ☆97Updated 3 weeks ago
• plasslab / SCALPEL
  Quantification of isoform usage and alternative polyadenylation (APA) from single-cell RNA-seq using a Nextflow-based pipeline.
  ☆26Updated last week
• gagneurlab / absplice
  ☆39Updated 3 months ago
• p-koo / creme-nn
  https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2
  ☆30Updated 8 months ago
• higlass / higlass-python
  Python bindings to and Jupyter Notebook+Lab integration for the HiGlass viewer
  ☆59Updated last week
• billgreenwald / pgltools
  Paired Genomic Loci Tool Suite
  ☆32Updated 2 years ago
• bernardo-de-almeida / DeepSTARR
  Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…
  ☆68Updated 2 years ago
• pachterlab / seqspec
  machine-readable file format for genomic library sequence and structure
  ☆123Updated last month
• broadinstitute / pyqtl
  Collection of analysis tools for quantitative trait loci
  ☆59Updated 3 weeks ago
• kircherlab / CADD-scripts
  CADD scripts release for offline scoring. For more information about CADD, please visit our website
  ☆86Updated 4 months ago
• ML4GLand / EUGENe
  Elucidating the Utility of Genomic Elements with Neural Nets
  ☆70Updated 10 months ago
• liguowang / cpgtools
  Python package to analyze DNA methylation data
  ☆44Updated 3 weeks ago