Alternatives and similar repositories for avocado

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

• kundajelab / ENCODE_downloader
  Downloader for ENCODE
  ☆32Updated 4 years ago
• kipoi / kipoiseq
  Standard set of data-loaders for training and making predictions for DNA sequence-based models.
  ☆82Updated 10 months ago
• kundajelab / dfim
  Deep Feature Interaction Maps (DFIM)
  ☆53Updated 6 years ago
• calico / baskerville
  Machine learning methods for DNA sequence analysis.
  ☆50Updated last week
• jrderuiter / pybiomart
  A simple pythonic interface to biomart.
  ☆55Updated 5 years ago
• kundajelab / tfmodisco
  TF MOtif Discovery from Importance SCOres
  ☆144Updated last year
• greenelab / multi-plier
  An unsupervised transfer learning approach for rare disease transcriptomics
  ☆45Updated 5 years ago
• BIMSBbioinfo / maui
  Multi-omics Autoencoder Integration: Deep learning-based heterogenous data analysis toolkit
  ☆49Updated 2 years ago
• jmschrei / tfmodisco-lite
  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
  ☆80Updated 3 weeks ago
• kundajelab / simdna
  A python library for creating simulated regulatory DNA sequences
  ☆38Updated 2 years ago
• shwhalen / ml-pitfalls
  Notebooks accompanying the paper "Navigating the pitfalls of applying machine learning in genomics"
  ☆45Updated last year
• vagarwal87 / Xpresso
  Predicting gene expression levels from genomic sequences
  ☆53Updated 5 years ago
• jmschrei / bpnet-lite
  This repository hosts a minimal version of a Python API for BPNet.
  ☆47Updated last week
• biothings / mygene.py
  mygene is an easy-to-use Python wrapper to access MyGene.Info services.
  ☆92Updated 6 months ago
• shwhalen / targetfinder
  ☆84Updated 4 years ago
• kipoi / models
  Model zoo for genomics
  ☆167Updated 11 months ago
• kundajelab / coda
  Coda: a convolutional denoising algorithm for genome-wide ChIP-seq data
  ☆33Updated 8 years ago
• nfusi / qvalue
  Converts p-values in q-values, see (Storey and Tibshirani, 2003)
  ☆29Updated 8 years ago
• kundajelab / ChromDragoNN
  Code for the paper "Integrating regulatory DNA sequence and gene expression to predict genome-wide chromatin accessibility across cellula…
  ☆44Updated 4 years ago
• gagneurlab / MMSplice_MTSplice
  Tissue-specific variant effect predictions on splicing
  ☆42Updated 2 years ago
• MaayanLab / blitzgsea
  Fast Gene Set Enrichment Analysis (GSEA) implementation of the prerank algorithm. Use Loess interpolation of bimodal ES distribution for …
  ☆49Updated 2 months ago
• ML4GLand / EUGENe
  Elucidating the Utility of Genomic Elements with Neural Nets
  ☆70Updated 7 months ago
• Dongwon-Lee / lsgkm
  ☆51Updated last year
• statbiophys / SONIA
  Infer selection pressures on features of amino acid CDR3 sequences.
  ☆25Updated last year
• brianhie / geosketch
  Geometry-preserving random sampling
  ☆87Updated 8 months ago
• greenelab / BioBombe
  BioBombe: Sequentially compressed gene expression features enhances biological signatures
  ☆65Updated last year
• KrishnaswamyLab / scprep
  A collection of scripts and tools for loading, processing, and handling single cell data.
  ☆74Updated 2 years ago
• qmarcou / IGoR
  IGoR is a C++ software designed to infer V(D)J recombination related processes from sequencing data. Find full documentation at:
  ☆51Updated 3 years ago
• SchulzLab / TEPIC
  Annotation of genomic regions using transcription factor binding sites and epigenetic data
  ☆40Updated 3 years ago
• stanleyn / Comp790-166-Comp-Bio
  Computational Biology- Spring 2021
  ☆47Updated 3 years ago