Alternatives and similar repositories for puffin_manuscript

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

• liu-bioinfo-lab / EPCOT
  ☆24Updated last year
• vagarwal87 / saluki_paper
  Saluki, a method to predict mRNA half-lives from sequence
  ☆25Updated 2 years ago
• xiongxslab / Translatomer
  ☆24Updated 3 weeks ago
• karbalayghareh / GraphReg
  Chromatin interaction aware gene regulatory modeling with graph attention networks
  ☆27Updated 2 years ago
• calico / borzoi-paper
  Analyses related to the Borzoi paper.
  ☆19Updated 2 weeks ago
• Carldeboer / CisRegModels
  Scripts for building computational models of gene regulation with tensorflow
  ☆11Updated 5 years ago
• ketringjoni / SuPreMo
  Pipeline for generating reference and perturbed sequences for input into predictive models.
  ☆11Updated 10 months ago
• mhorlacher / rbpnet
  ☆18Updated last year
• p-koo / creme-nn
  https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2
  ☆30Updated 8 months ago
• wassermanlab / ExplaiNN
  ExplaiNN: interpretable and transparent neural networks for genomics
  ☆49Updated 6 months ago
• jzhoulab / puffin
  deep learning-inspired explainable sequence model for transcription initiation
  ☆96Updated 7 months ago
• bernardo-de-almeida / DeepSTARR
  Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…
  ☆67Updated 2 years ago
• FunctionLab / sei-manuscript
  Code for reproducing the Sei manuscript results
  ☆17Updated 3 years ago
• jmschrei / bpnet-lite
  This repository hosts a minimal version of a Python API for BPNet.
  ☆49Updated last month
• goodarzilab / SwitchFinder
  ☆18Updated last year
• wzthu / NeuronMotif
  NeuronMotif: deciphering cis-regulatory codes by layerwise demixing of deep neural networks
  ☆11Updated last year
• vagarwal87 / Xpresso
  Predicting gene expression levels from genomic sequences
  ☆54Updated 5 years ago
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer link prediction
  ☆43Updated last week
• ma-compbio / scGHOST
  single-cell Hi-C, scHi-C, Hi-C, 3D genome, nuclear organization, genome subcompartment
  ☆21Updated last year
• JiaqiLiZju / Nvwa
  ☆35Updated 3 years ago
• ejarmand / comparative_epigenomic_motor_cortex
  ☆10Updated 9 months ago
• Illumina / PromoterAI
  ☆77Updated 3 months ago
• Genentech / polygraph
  Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …
  ☆35Updated 6 months ago
• mostafavilabuw / EnformerAssessment
  ☆24Updated last year
• XSLiuLab / Seq2Neo
  Seq2Neo: a comprehensive pipeline for cancer neoantigen immunogenicity prediction
  ☆21Updated 2 years ago
• MiraldiLab / maxATAC
  Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks
  ☆29Updated 5 months 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
• yal054 / epiformer
  ☆26Updated 5 months ago
• johahi / borzoi-pytorch
  Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
  ☆75Updated 3 weeks ago
• johli / aparent
  APA Regression Net - Predict and Engineer Alternative Polyadenylation
  ☆39Updated 4 years ago