Alternatives and similar repositories for miniMDS

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

• cmdoret / hicreppy
  Python reimplementation of hicrep with compatibility for sparse matrices
  ☆18Updated 2 years ago
• billgreenwald / pgltools
  Paired Genomic Loci Tool Suite
  ☆32Updated 2 years ago
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆44Updated 3 years ago
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆27Updated 2 years ago
• Zhong-Lab-UCSD / HiCtool
  Python library for processing and visualizing Hi-C data
  ☆20Updated 5 years ago
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆50Updated 6 years ago
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆28Updated 2 years ago
• tjs23 / nuc_dynamics
  Particle dynamics and simulated annealing for chromosome structure calculation
  ☆29Updated last year
• TaoYang-dev / hicrep
  R package to evaluate the reproducibility of Hi-C data
  ☆26Updated 2 years ago
• fansalon / TEspeX
  TEspeX - pipeline for Transposable Elements expression quantification
  ☆21Updated 2 years ago
• ydLiu-HIT / deSALT
  deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads
  ☆44Updated 2 years ago
• ay-lab / selfish
  SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.
  ☆17Updated 2 years ago
• daler / metaseq
  Framework for integrated analysis and plotting of ChIP/RIP/RNA/*-seq data
  ☆87Updated 5 years ago
• kundajelab / genomedisco
  Software for comparing contact maps from HiC, CaptureC and other 3D genome data.
  ☆27Updated 7 years ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆35Updated 9 months ago
• Chrom3D / Chrom3D
  ☆51Updated 2 years ago
• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆60Updated 3 months ago
• TrinityCTAT / ctat-mutations
  Mutation detection using GATK4 best practices and latest RNA editing filters resources. Works with both Hg38 and Hg19
  ☆77Updated last year
• hms-dbmi / chromoscope
  Interactive multiscale visualization for structural variation in human genomes
  ☆70Updated this week
• maxplanck-ie / HiCAssembler
  Software to assemble contigs/scaffolds into chromosomes using Hi-C data
  ☆28Updated 11 months ago
• parklab / LiRA
  ☆18Updated 3 years ago
• gaolabtools / scNanoGPS
  Single cell Nanopore sequencing data for Genotype and Phenotype
  ☆54Updated 3 months ago
• PouletAxel / SIP
  SIP: Significant Interaction Peak caller
  ☆15Updated 4 months ago
• ncbi / BAMscale
  BAMscale is a one-step tool for either 1) quantifying and normalizing the coverage of peaks or 2) generated scaled BigWig files for easy …
  ☆71Updated 8 months ago
• dputhier / pygtftk
  A python package and a set of shell commands to handle GTF files
  ☆49Updated last year
• Oshlack / Clinker
  Gene Fusion Visualiser
  ☆51Updated 2 years ago
• cfce / chilin
  ChIP-seq DC and QC Pipeline
  ☆36Updated 4 years ago
• broadinstitute / longbow
  Annotation and segmentation of MAS-seq data
  ☆20Updated 2 years ago
• LabTranslationalArchitectomics / riboWaltz
  optimization of ribosome P-site positioning in ribosome profiling data
  ☆52Updated 6 months ago
• pk7zuva / Circle_finder
  Micro DNA identification
  ☆24Updated 4 years ago