Alternatives and similar repositories for miniMDS:

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

• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆40Updated 2 years ago
• ambj / MuPeXI
  MuPeXI: the mutant peptide extractor and informer, a tool for predicting neo-epitopes from tumor sequencing data.
  ☆49Updated 5 years ago
• Zhong-Lab-UCSD / HiCtool
  Python library for processing and visualizing Hi-C data
  ☆20Updated 4 years ago
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆27Updated last year
• parklab / LiRA
  ☆18Updated 2 years ago
• cmdoret / hicreppy
  Python reimplementation of hicrep with compatibility for sparse matrices
  ☆17Updated 2 years ago
• TaoYang-dev / hicrep
  R package to evaluate the reproducibility of Hi-C data
  ☆26Updated last year
• gtrichard / deepStats
  deepStats: a stastitical toolbox for deeptools and genomic signals
  ☆34Updated 3 years ago
• YeoLab / outrigger
  Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data
  ☆65Updated 4 years ago
• tjs23 / nuc_dynamics
  Particle dynamics and simulated annealing for chromosome structure calculation
  ☆28Updated 10 months ago
• brentp / python-giggle
  python (cython) wrapper for https://github.com/ryanlayer/giggle for fast interval searching of huge datasets.
  ☆16Updated 6 years ago
• kundajelab / genomedisco
  Software for comparing contact maps from HiC, CaptureC and other 3D genome data.
  ☆26Updated 6 years ago
• gaolabtools / scNanoGPS
  Single cell Nanopore sequencing data for Genotype and Phenotype
  ☆44Updated this week
• ydLiu-HIT / deSALT
  deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads
  ☆44Updated 2 years ago
• TrinityCTAT / ctat-mutations
  Mutation detection using GATK4 best practices and latest RNA editing filters resources. Works with both Hg38 and Hg19
  ☆74Updated 5 months ago
• pinellolab / CRISPRitz
  Tool package to perform in-silico CRISPR analysis and assessment
  ☆22Updated 8 months ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆34Updated last month
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆26Updated last year
• billgreenwald / pgltools
  Paired Genomic Loci Tool Suite
  ☆30Updated 2 years ago
• pdxgx / neoepiscope
  predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data
  ☆26Updated last year
• fansalon / TEspeX
  TEspeX - pipeline for Transposable Elements expression quantification
  ☆20Updated last year
• YaqiangCao / cLoops2
  Enhanced and elegant flexible peak/loop/domain -calling and analysis tool for 1D/3D genomic data.
  ☆45Updated last month
• hms-dbmi / chromoscope
  Interactive multiscale visualization for structural variation in human genomes
  ☆67Updated this week
• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆53Updated last month
• genepi / nf-gwas
  A nextflow pipeline to perform state-of-the-art genome-wide association studies.
  ☆64Updated 3 weeks ago
• Kuanhao-Chao / splam
  ✂️ Deep learning-based splice site predictor that improves spliced alignments
  ☆41Updated this week
• ding-lab / somaticwrapper
  Detect somatic variants from tumor and normal WGS/WXS data
  ☆15Updated last week
• kundajelab / 3DChromatin_ReplicateQC
  Software to compute reproducibility and quality scores for Hi-C data
  ☆46Updated 5 years ago
• seqcode / allo
  Allo: a multi-mapped read rescue strategy for gene regulatory analyses
  ☆24Updated 4 months ago
• Xinglab / lr2rmats
  Long read to rMATS
  ☆31Updated last year