Alternatives and similar repositories for pyDNase

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

• cfce / chilin
  ChIP-seq DC and QC Pipeline
  ☆34Updated 4 years ago
• rajanil / msCentipede
  A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.
  ☆26Updated 8 years ago
• shendurelab / MPRAflow
  A portable, flexible, parallelized tool for complete processing of massively parallel reporter assay data
  ☆32Updated 4 months ago
• shawnzhangyx / PePr
  a peak-calling and differential analysis tool for replicated ChIP-Seq data
  ☆37Updated 3 years ago
• kundajelab / coda
  Coda: a convolutional denoising algorithm for genome-wide ChIP-seq data
  ☆33Updated 7 years ago
• pachterlab / sircel
  Identify cell barcodes from single-cell genomics sequencing experiments
  ☆43Updated 3 years ago
• ding-lab / hotspot3d
  3D hotspot mutation proximity analysis tool
  ☆47Updated 2 years ago
• kundajelab / dfim
  Deep Feature Interaction Maps (DFIM)
  ☆53Updated 6 years ago
• aboyle / F-seq
  A Feature Density Estimator for High-Throughput Sequence Tags
  ☆23Updated 4 years ago
• kundajelab / genomedisco
  Software for comparing contact maps from HiC, CaptureC and other 3D genome data.
  ☆26Updated 7 years ago
• Oshlack / Clinker
  Gene Fusion Visualiser
  ☆51Updated 2 years ago
• gagneurlab / concise
  Concise: Keras extension for regulatory genomics
  ☆35Updated 2 years ago
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 5 years ago
• ma-compbio / PEP
  ☆14Updated 5 years ago
• brwnj / umitools
  Tools to handle reads sequenced with unique molecular identifiers (UMIs).
  ☆30Updated 7 years ago
• csoneson / NativeRNAseqComplexTranscriptome
  Code for the paper "A comprehensive examination of Nanopore native RNA sequencing for characterization of complex transcriptomes"
  ☆19Updated 5 years ago
• mandricigor / imrep
  ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data.
  ☆28Updated 5 years ago
• Dongwon-Lee / lsgkm
  ☆51Updated last year
• hms-dbmi / spp
  SPP - R package for analysis of ChIP-seq and other functional sequencing data
  ☆42Updated 3 years ago
• nellore / intropolis
  Exon-exon splice junctions across SRA
  ☆40Updated 3 years ago
• yuelab / BUTLRTools
  ☆16Updated 8 years ago
• SchulzLab / TEPIC
  Annotation of genomic regions using transcription factor binding sites and epigenetic data
  ☆40Updated 3 years ago
• comprna / MoSEA
  Motif Scan and Enrichment Analysis (MoSEA)
  ☆16Updated 4 years ago
• ambj / MuPeXI
  MuPeXI: the mutant peptide extractor and informer, a tool for predicting neo-epitopes from tumor sequencing data.
  ☆50Updated 5 years ago
• mhorlbeck / CRISPRiaDesign
  ☆35Updated 6 years ago
• pdxgx / neoepiscope
  predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data
  ☆27Updated last year
• KarchinLab / 2020plus
  Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests
  ☆49Updated 10 months ago
• aquaskyline / Skyhawk
  An Artificial Neural Network-based discriminator for validating clinically significant genomic variants
  ☆35Updated last year
• Danko-Lab / rtfbs_db
  Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
  ☆22Updated 6 years ago
• WeiqiangZhou / BIRD
  Big data Regression for predicting DNase I hypersensitivity
  ☆30Updated 9 months ago