Alternatives and similar repositories for TADbit

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

• 4dn-dcic / hic2cool
  Lightweight converter between hic and cool contact matrices.
  ☆73Updated 9 months ago
• ay-lab / fithic
  Fit-Hi-C is a tool for assigning statistical confidence estimates to chromosomal contact maps produced by genome-wide genome architecture…
  ☆85Updated 2 years ago
• open2c / distiller-nf
  A modular Hi-C mapping pipeline
  ☆94Updated 5 months ago
• open2c / pairtools
  Extract 3D contacts (.pairs) from sequencing alignments
  ☆112Updated 3 months ago
• hms-dbmi / 3d-genome-processing-tutorial
  A 3D genome data processing tutorial for ISMB/ECCB 2017
  ☆50Updated 7 years ago
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆112Updated 2 years ago
• Zhong-Lab-UCSD / Genomic-Interactive-Visualization-Engine
  Genomic Interactive Visualization Engine
  ☆145Updated 2 years ago
• htseq / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆101Updated 6 months ago
• ENCODE-DCC / hic-pipeline
  HiC uniform processing pipeline
  ☆59Updated last year
• LabTranslationalArchitectomics / riboWaltz
  optimization of ribosome P-site positioning in ribosome profiling data
  ☆52Updated 2 months ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 3 months ago
• open2c / coolpuppy
  A versatile tool to perform pile-up analysis on Hi-C data in .cool format.
  ☆80Updated 6 months ago
• kircherlab / CADD-scripts
  CADD scripts release for offline scoring. For more information about CADD, please visit our website
  ☆80Updated 5 months ago
• CRG-Barcelona / bwtool
  A tool for bigWig files.
  ☆119Updated 6 years ago
• lh3 / hickit
  TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C
  ☆107Updated 4 years ago
• GreenleafLab / NucleoATAC
  nucleosome calling using ATAC-seq
  ☆106Updated 4 years ago
• mlbendall / telescope
  Quantification of transposable element expression using RNA-seq
  ☆69Updated last year
• biocore-ntnu / epic2
  Ultraperformant reimplementation of SICER
  ☆56Updated 3 years ago
• FelixKrueger / SNPsplit
  Allele-specific alignment sorting
  ☆55Updated 2 years ago
• kvittingseerup / IsoformSwitchAnalyzeR
  An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
  ☆112Updated 3 months ago
• parklab / ShatterSeek
  ☆68Updated last year
• BUStools / bustools
  Tools for working with BUS files
  ☆98Updated 2 weeks ago
• nf-core / hic
  Analysis of Chromosome Conformation Capture data (Hi-C)
  ☆99Updated 2 weeks ago
• dpryan79 / MethylDackel
  A (mostly) universal methylation extractor for BS-seq experiments.
  ☆170Updated 10 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…
  ☆119Updated last year
• sebriois / biomart
  Python biomart API
  ☆65Updated 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…
  ☆89Updated last month
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆100Updated 6 months ago
• CostaLab / reg-gen
  Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.
  ☆108Updated 5 months ago
• ewels / AWS-iGenomes
  Documentation and description of AWS iGenomes S3 resource.
  ☆114Updated 5 months ago