Alternatives and similar repositories for basepairmodels

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

• complextissue / pytximport
  Feature-rich Python implementation of the tximport package for gene count estimation.
  ☆37Updated 3 weeks ago
• bernardo-de-almeida / motif-clustering
  Clustering TF motif models from multiple species (mostly focused on Drosophila and human) by similarity to remove redundancy
  ☆28Updated 2 years ago
• vaquerizaslab / chess
  Comparison of Hi-C Experiments using Structural Similarity.
  ☆27Updated 2 years ago
• GuanLab / Anchor
  This is the package of Yuanfang's winning algorithm in the ENCODE-DREAM in vivo Transcription Factor Binding Site Prediction Challenge
  ☆20Updated 5 years ago
• maxwellsh / DIGDriver
  Flexible and efficient tests for evidence of positive selection anywhere in the cancer genome.
  ☆26Updated 3 years ago
• p-koo / creme-nn
  https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2
  ☆30Updated 10 months ago
• kundajelab / idr
  IDR
  ☆31Updated 2 years ago
• songlab-cal / scquint
  ☆18Updated last year
• joachimwolff / scHiCExplorer
  Single-cell Hi-C data analysis toolbox
  ☆27Updated 4 years ago
• gagneurlab / absplice
  ☆39Updated 4 months ago
• JinLabBioinfo / DeepLoop
  DeepLoop robustly identifies enhancer-promoter interactions from low-depth and single-cell Hi-C data
  ☆34Updated 7 months ago
• mcvickerlab / varCA
  Use an ensemble of variant callers to call variants from ATAC-seq data
  ☆23Updated 6 months ago
• FunctionLab / sei-manuscript
  Code for reproducing the Sei manuscript results
  ☆17Updated 3 years ago
• open2c / quaich
  snakemake pipeline for Hi-C post-processing
  ☆22Updated last year
• wassermanlab / ExplaiNN
  ExplaiNN: interpretable and transparent neural networks for genomics
  ☆49Updated 7 months ago
• gagneurlab / MMSplice_MTSplice
  Tissue-specific variant effect predictions on splicing
  ☆42Updated 2 years ago
• novoalab / nanoRMS
  Prediction of RNA modifications and their stoichiometry from per-read features: current intensity, dwell time and trace (Begik*, Lucas* e…
  ☆24Updated 2 years ago
• mortazavilab / lapa
  Alternative polyadenylation detection from diverse data sources such as 3'-seq, long-read and short-reads.
  ☆31Updated 2 years ago
• rargelaguet / thesis
  University of Cambridge PhD thesis
  ☆16Updated 4 years ago
• dejunlin / hicrep
  Python implementation of HiCRep stratum-adjusted correlation coefficient of Hi-C data with Cooler sparse contact matrix support
  ☆39Updated last year
• pachterlab / sircel
  Identify cell barcodes from single-cell genomics sequencing experiments
  ☆43Updated 3 years ago
• qqwang-berkeley / JUM
  A tool for annotation-free differential analysis of tissue-specific pre-mRNA alternative splicing patterns
  ☆29Updated 2 years ago
• open2c / cooler-binder
  Cooler demo using a Jupyter notebook Binder
  ☆18Updated 5 years ago
• hemberg-lab / MicroExonator
  Snakemake pipeline for microexon discovery and quantification
  ☆20Updated 10 months ago
• ulelab / ultraplex
  Ultra-fast 5' and 3' demultiplexer
  ☆28Updated last year
• vagarwal87 / saluki_paper
  Saluki, a method to predict mRNA half-lives from sequence
  ☆27Updated 3 years ago
• aertslab / PUMATAC
  Pipeline for Universal Mapping of ATAC-seq
  ☆25Updated 2 months ago
• uedaLabR / nanoDoc
  RNA modification detection using Nanopore raw reads with Deep One Class classification
  ☆19Updated 4 years ago
• awjga / PORE-cupine
  First version of PORE-cupine. Detecting SHAPE modification using direct RNA sequencing
  ☆14Updated 2 years ago
• mccoy-lab / MAGE
  Analysis of gene expression and splicing diversity in a subset of samples from the 1000 Genomes Project, including eQTL and sQTL discover…
  ☆42Updated last year