Alternatives and similar repositories for fithic

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

• lh3 / hickit
  TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C
  ☆111Updated 4 years ago
• open2c / pairtools
  Extract 3D contacts (.pairs) from sequencing alignments
  ☆116Updated 3 weeks ago
• ucagenomix / sicelore
  Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanop…
  ☆75Updated 2 years ago
• FelixKrueger / SNPsplit
  Allele-specific alignment sorting
  ☆58Updated 2 years ago
• dekkerlab / cworld-dekker
  perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)
  ☆67Updated 6 years ago
• 4dn-dcic / hic2cool
  Lightweight converter between hic and cool contact matrices.
  ☆74Updated last year
• open2c / coolpuppy
  A versatile tool to perform pile-up analysis on Hi-C data in .cool format.
  ☆80Updated 10 months ago
• ENCODE-DCC / hic-pipeline
  HiC uniform processing pipeline
  ☆61Updated last year
• XiaoTaoWang / NeoLoopFinder
  A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
  ☆71Updated last year
• wyang17 / SQuIRE
  Software for Quantifying Interspersed Repeat Expression
  ☆62Updated 3 years ago
• harbourlab / SparK
  Publication quality NGS track plotting
  ☆114Updated 3 years ago
• BioinfoUNIBA / REDItools2
  ☆58Updated last month
• ay-lab / dcHiC
  dcHiC: Differential compartment analysis for Hi-C datasets
  ☆72Updated last year
• vaquerizaslab / fanc
  FAN-C: Framework for the ANalysis of C-like data
  ☆118Updated last year
• iprada / Circle-Map
  A method for circular DNA detection based on probabilistic mapping of ultrashort reads
  ☆66Updated last year
• BioinfoUNIBA / REDItools
  REDItools are python scripts to investigate RNA editing at genomic scale.
  ☆68Updated last month
• open2c / distiller-nf
  A modular Hi-C mapping pipeline
  ☆98Updated 9 months ago
• XiaoTaoWang / HiCLift
  A fast and efficient tool for converting chromatin interaction data between genome assemblies
  ☆74Updated last month
• NYU-BFX / hic-bench
  A set of pipelines for Hi-C and ChIP-Seq analysis.
  ☆47Updated last year
• mlbendall / telescope
  Quantification of transposable element expression using RNA-seq
  ☆75Updated last year
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆116Updated last year
• tariks / peakachu
  Genome-wide contact analysis using sklearn
  ☆68Updated last year
• olarerin / metaPlotR
  A Perl/R pipeline for plotting metagenes
  ☆37Updated 3 years ago
• MonashBioinformaticsPlatform / RSeQC
  fork of RSeQC python RNAseq metrics suit of tools
  ☆49Updated 6 years ago
• mhammell-laboratory / TElocal
  A package for quantifying transposable elements at a locus level for RNAseq datasets.
  ☆29Updated 7 months ago
• dozmorovlab / TADCompare
  Package for analysis and characterization of differential TADs
  ☆25Updated 3 years ago
• kvittingseerup / IsoformSwitchAnalyzeR
  An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
  ☆117Updated 7 months ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆50Updated 6 years ago
• a2iEditing / RNAEditingIndexer
  A tool for the calculation of RNA-editing index for RNA seq data
  ☆43Updated last year
• haowenz / chromap
  Fast alignment and preprocessing of chromatin profiles
  ☆203Updated 2 weeks ago