Alternatives and similar repositories for DeepArk:

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

• CraigIDent / SpliSER
  Bioinformatic tool for Splice site Strength Estimation using RNA-seq
  ☆14Updated 2 years ago
• awjga / PORE-cupine
  First version of PORE-cupine. Detecting SHAPE modification using direct RNA sequencing
  ☆14Updated last year
• joachimwolff / scHiCExplorer
  Single-cell Hi-C data analysis toolbox
  ☆25Updated 3 years ago
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆40Updated 2 years ago
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆27Updated last year
• huyustats / SCATS
  A statistical tool to detect differential alternative splicing events using single-cell RNA-seq
  ☆22Updated last year
• pinellolab / CRISPRitz
  Tool package to perform in-silico CRISPR analysis and assessment
  ☆22Updated 9 months ago
• comprna / MoSEA
  Motif Scan and Enrichment Analysis (MoSEA)
  ☆16Updated 4 years ago
• zhejilab / RibORF
  Identifying genome-wide translated open reading frames using ribosome profiling
  ☆21Updated last year
• mirnylab / hiclib-legacy
  A legacy repository. Was replaced by distiller, cooler, and cooltools.
  ☆18Updated 4 years ago
• cyang235 / LncADeep
  LncADeep is an ab initio lncRNA identification and functional annotation tool based on deep learning
  ☆26Updated 6 years ago
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆27Updated last year
• timplab / nanoNOMe
  nanoNOMe (Nucleosome Occupancy and Methylome nanopore sequencing) Analysis
  ☆18Updated 2 years ago
• Xinglab / lr2rmats
  Long read to rMATS
  ☆31Updated last year
• dejunlin / hicrep
  Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support
  ☆36Updated last year
• comprna / CHEUI
  Concurrent identification of m6A and m5C modifications in individual molecules from nanopore sequencing
  ☆39Updated 7 months ago
• pinellolab / AmpUMI
  Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)
  ☆41Updated 9 months ago
• gagneurlab / absplice
  ☆34Updated 5 months ago
• complextissue / pytximport
  Feature-rich Python implementation of the tximport package for gene count estimation.
  ☆33Updated this week
• novoalab / Nano3P_Seq
  Nanopore 3' end-capture sequencing (Begik et al., bioRxiv 2021)
  ☆12Updated last year
• SziKayLeung / Whole_Transcriptome_Paper
  ☆17Updated 10 months ago
• parklab / HiNT
  HiC for copy Number variation and Translocation detection
  ☆37Updated 3 years ago
• koszullab / hicstuff
  Simple library/pipeline to generate and handle Hi-C data.
  ☆37Updated 3 months ago
• Zhong-Lab-UCSD / HiCtool
  Python library for processing and visualizing Hi-C data
  ☆20Updated 4 years ago
• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆39Updated last month
• GuanLab / Anchor
  This is the package of Yuanfang's winning algorithm in the ENCODE-DREAM in vivo Transcription Factor Binding Site Prediction Challenge
  ☆20Updated 4 years ago
• XueyiDong / LongReadBenchmark
  Benchmarking long-read RNA-seq analysis tools
  ☆26Updated this week
• HKU-BAL / Clair3-RNA
  Clair3-RNA - a long-read small variant caller for RNA sequencing data
  ☆22Updated last month
• BlanchetteLab / HIFI
  Hi-C Interaction Frequency Inference (HIFI): High-resolution estimation of DNA-DNA interaction frequency from Hi-C data
  ☆23Updated 2 years ago
• ans4013 / ScisorWiz
  ScisorWiz: Differential Isoform Visualizer for Long-Read RNA Sequencing Data
  ☆15Updated 9 months ago