Alternatives and similar repositories for igv-notebook

Users that are interested in igv-notebook are comparing it to the libraries listed below

• nf-core / oncoanalyser
  A comprehensive cancer DNA/RNA analysis and reporting pipeline
  ☆93Updated last week
• open2c / pairtools
  Extract 3D contacts (.pairs) from sequencing alignments
  ☆117Updated 2 weeks ago
• 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 last week
• open2c / coolpuppy
  A versatile tool to perform pile-up analysis on Hi-C data in .cool format.
  ☆80Updated last year
• betteridiot / bamnostic
  a pure Python multi-version tolerant, runtime and OS-agnostic Binary Alignment Map (BAM) file parser and random access tool
  ☆98Updated 4 months ago
• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆63Updated 6 months ago
• phageghost / python-genome-browser
  Tools for making plots of genomic datasets in a genome-browser-like format
  ☆32Updated 11 months ago
• 4dn-dcic / hic2cool
  Lightweight converter between hic and cool contact matrices.
  ☆74Updated last year
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 9 months ago
• louiejtaylor / grabseqs
  A utility for easy downloading of reads from next-gen sequencing repositories like NCBI SRA
  ☆109Updated 3 months ago
• mlafave / sam2pairwise
  sam2pairwise takes a SAM file and uses the CIGAR and MD tag to reconstruct the pairwise alignment of each read.
  ☆44Updated 10 years ago
• IARCbioinfo / BAM-tricks
  Tip and tricks for BAM files
  ☆86Updated 7 years ago
• htseq / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆107Updated 5 months ago
• nf-core / configs
  Config files used to define parameters specific to compute environments at different Institutions
  ☆104Updated this week
• HKU-BAL / ClairS-TO
  ClairS-TO - a deep-learning method for tumor-only somatic variant calling
  ☆72Updated last week
• higlass / higlass-docker
  Builds a docker container wrapping higlass-server and higlass-client in nginx
  ☆31Updated 3 years ago
• sbslee / fuc
  Frequently used commands in bioinformatics
  ☆57Updated last year
• nf-core / differentialabundance
  Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
  ☆84Updated last week
• ay-lab / dcHiC
  dcHiC: Differential compartment analysis for Hi-C datasets
  ☆73Updated last year
• cortes-ciriano-lab / savana
  Somatic structural variant caller for long-read data
  ☆83Updated this week
• mlbendall / telescope
  Quantification of transposable element expression using RNA-seq
  ☆76Updated last year
• liguowang / CrossMap
  CrossMap is a python program to lift over genome coordinates from one genome version to another.
  ☆89Updated 2 weeks ago
• nf-core / airrflow
  B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework
  ☆69Updated this week
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆115Updated last month
• linsalrob / fastq-pair
  Match up paired end fastq files quickly and efficiently.
  ☆152Updated last year
• jeremymcrae / liftover
  liftover for python, made fast with cython
  ☆92Updated last month
• GoekeLab / sg-nex-data
  Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project
  ☆143Updated 2 months ago
• marcelm / dnaio
  Efficiently read and write sequencing data from Python
  ☆68Updated last month
• wyang17 / SQuIRE
  Software for Quantifying Interspersed Repeat Expression
  ☆63Updated 3 years ago
• lh3 / hickit
  TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C
  ☆113Updated 4 years ago