Alternatives and similar repositories for mHiC:

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

• AndreasHeger / gat
  Genomic Association Tester
  ☆31Updated last year
• thelovelab / rnaseqDTU
  RNA-seq workflow: differential transcript usage
  ☆21Updated last year
• maxplanck-ie / HiCAssembler
  Software to assemble contigs/scaffolds into chromosomes using Hi-C data
  ☆28Updated 6 months ago
• BlanchetteLab / HIFI
  Hi-C Interaction Frequency Inference (HIFI): High-resolution estimation of DNA-DNA interaction frequency from Hi-C data
  ☆23Updated 2 years ago
• dixonlab / hic_breakfinder
  ☆37Updated 5 years ago
• ay-lab / HiCnv
  HiCnv is used to call copy number variations and breakpoints from Hi-C data
  ☆21Updated last year
• cortes-ciriano-lab / ReConPlot
  ☆22Updated 4 months ago
• dekkerlab / crane-nature-2015
  code associated with crane-nature-2015, 10.1038/nature14450
  ☆34Updated 9 years ago
• jmw86069 / splicejam
  Sashimi plots for RNA-seq data using detected transcripts
  ☆28Updated last month
• khuang28jhu / bs3
  BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.
  ☆27Updated 5 years ago
• ZhouQiangwei / MethHaplo
  allele specific DNA methylation haplotype region
  ☆14Updated last year
• kauralasoo / wiggleplotr
  A small R package to make sequencing read coverage plots in R.
  ☆37Updated 2 years ago
• seqcode / allo
  Allo: a multi-mapped read rescue strategy for gene regulatory analyses
  ☆24Updated 7 months ago
• smithlabcode / abismal
  Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.
  ☆18Updated 2 months ago
• bartongroup / RATS
  Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.
  ☆34Updated 2 years ago
• deWitLab / GENOVA
  GENome Organisation Visual Analytics
  ☆15Updated 3 years ago
• stephenturner / mergelanes
  Merge fastq files split over lanes
  ☆20Updated 7 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• shawnzhangyx / PePr
  a peak-calling and differential analysis tool for replicated ChIP-Seq data
  ☆37Updated 2 years ago
• crazyhottommy / pyflow-scATACseq
  snakemake workflow for post-processing scATACseq data
  ☆20Updated 4 years ago
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆39Updated 3 years ago
• rvolden / Mandalorion-Episode-II
  Version II of Mandalorion
  ☆32Updated 6 years ago
• yezhengSTAT / mHiC
  ☆22Updated 4 years ago
• Xinglab / rMATS-long
  ☆28Updated 4 months ago
• homeveg / nuctools
  software for analysis of chromatin feature occupancy profiles from high-throughput sequencing data
  ☆17Updated 5 years ago
• mskilab-org / gGnome
  R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework
  ☆40Updated last week
• derijkp / scywalker
  A program for the analysis of single cell nanopore long read data
  ☆18Updated last month
• NuttyLogic / BSBolt
  BiSulfite Bolt - A Bisulfite Sequencing Alignment and Processing Tool
  ☆21Updated 2 years ago
• Danko-Lab / rtfbs_db
  Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
  ☆22Updated 6 years ago
• dphansti / mango
  chia pet analysis software
  ☆25Updated 6 years ago