shinthor Goto Github PK

alphafold

Open source code for AlphaFold.

alzheimers_parkinsons

Collaboration with Montine, Chang, and Montgomery labs on Alzheimers / Parkinson's ATAC-seq analysis

chainlit

Build Conversational AI in minutes ⚡️

deep-resp-forest

deepexplain

A unified framework of perturbation and gradient-based attribution methods for Deep Neural Networks interpretability. DeepExplain also includes support for Shapley Values sampling. (ICLR 2018)

drvae

Drug Response Variational Autoencoder

excelerate-scrnaseq

Single RNA-seq data analysis with R (Finland, May, 2019)

fastp

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

graphtools

Tools for building and manipulating graphs in Python. Forked to make up to date with sklearn versions 1.0.2 and onward which removed the sklearn.utils.graph.graph_shortest_path and replace it with scipy.sparse.csgraph.shortest_path as sklearn recommends

intro-to-chipseq

Intro to ChIPseq using HPC

itsimple

The Official itSIMPLE Project

jidoujisho

A full-featured immersion language learning suite for mobile.

loomr

An R-based interface for loom files

pubmed-batch-download

Batch download articles based on PMID (Pubmed ID)

pubmedpdf

Automatically fetch PDFs from terminal using a pubmed ID or search term (pubmed style)

pytorchtutorial

PyTorch Tutorials from my YouTube channel

salmonte

SalmonTE is an ultra-Fast and Scalable Quantification Pipeline of Transpose Element (TE) Abundances

scrnaseq

A single-cell RNAseq pipeline for 10X genomics data

simpletransformers

Transformers for Classification, NER, QA, Language Modelling, Language Generation, T5, Multi-Modal, and Conversational AI

tissue

TISSUE (Transcript Imputation with Spatial Single-cell Uncertainty Estimation) provides tools for estimating well-calibrated uncertainty measures for gene expression predictions in single-cell spatial transcriptomics datasets and utilizing them in downstream analyses

txtai-1

AI-powered search engine

vsn-pipelines

A repository of pipelines for single-cell data in Nextflow DSL2