Jome0169

Jome0169's Stars

• SkalskiP/courses

  This repository is a curated collection of links to various courses and resources about Artificial Intelligence (AI)

  Language:Python5.4k917487

• rmcelreath/stat_rethinking_2022

  Statistical Rethinking course winter 2022

  Language:R4.1k22422445

• seandavi/awesome-single-cell

  Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

  3.2k24823985

• kundajelab/deeplift

  Public facing deeplift repo

  Language:Python8233789164

• calico/basenji

  Sequential regulatory activity predictions with deep convolutional neural networks.

  Language:Python40030169122

• Genentech/gReLU

  gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.

  Language:Python22193723

• jmschrei/tangermeme

  Biological sequence analysis for the modern age.

  Language:Python189101211

• jtlovell/GENESPACE

  Language:R189716827

• bxlab/bx-python

  Tools for manipulating biological data, particularly multiple sequence alignments

  Language:Python148125754

• tidyomics/plyranges

  A grammar of genomic data transformation

  Language:R139149518

• kundajelab/tfmodisco

  TF MOtif Discovery from Importance SCOres

  Language:Jupyter Notebook124173929

• kundajelab/chrombpnet

  Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)

  Language:Jupyter Notebook1193912733

• wjwei-handsome/wgatools

  Whole Genome Alignment Tools

  Language:Rust1181117

• jmschrei/tfmodisco-lite

  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.

  Language:Python5743716

• HYsxe/PRINT

  Language:Jupyter Notebook311213

• jessemzhang/dendrosplit

  Language:Jupyter Notebook24913

• jmschrei/dragonnfruit

  A method for analyzing scATAC-seq experiments.

  Language:Python23259

• dissatisfaction-ai/scHierarchy

  A toolking for cell type hierarchies: marker selection & consistent classification

  Language:Python20361

• w-gao/pgv

  A web-based, interactive pangenome visualization tool

  Language:TypeScript19200

• kundajelab/basepairmodels

  Language:Python1611226

• idanefroni/Conservatory

  Identification of conserved non-coding sequences in plants

  Language:Perl13373

• ComparativeGenomicsToolkit/neutral-model-estimator

  Simple pipeline to go from an alignment to a neutral model, using the PHAST toolkit

  Language:Python10721

• Maize-Genetics-and-Genomics-Database/PanEffect

  PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) explore all possible amino acid substitutions and their variant effects for a reference genome, and (2) view the natural variation and their effects across a pangenome.

  Language:JavaScript8100

• ohlerlab/SEMITONES

  Language:Jupyter Notebook8310

• akcorut/SnakeRNASeq

  A Snakemake workflow to process paired-end RNA-Seq data.

  Language:Python7100

• klduval/CutNRun_2021

  scripts from "High resolution profiling of chromatin states during zebrafish gastrulation using CUT&RUN and CUT&TAG"

  Language:Shell4

• kundajelab/neural_motif_discovery

  Framework for interrogating transcription-factor motifs and their syntax/grammars from neural-network interpretations

  Language:Jupyter Notebook4511

• mam737/PolymorphicTEs_NAM

  Code Used To Call Polymorphic TEs between B73 and the remaining 25 Nested Association Mapping Lines

  Language:R3100

• mam737/StructuralVariation_ShinyApp

  Scripts Related to R Shiny App Visualizing Structural Variation Identified Using AnchorWave

  Language:R2100

• lampoona/Terminators-Plant-STARR-seq

  Code and data for Plant Terminators STARR-seq

  Language:Jupyter Notebook1