sinanugur

ML-For-Beginners

12 weeks, 26 lessons, 52 quizzes, classic Machine Learning for all

superset

Apache Superset is a Data Visualization and Data Exploration Platform

Fooocus

Focus on prompting and generating

awesome-mlops

A curated list of references for MLOps

pygwalker

PyGWalker: Turn your pandas dataframe into an interactive UI for visual analysis

micrograd

A tiny scalar-valued autograd engine and a neural net library on top of it with PyTorch-like API

corenet

CoreNet: A library for training deep neural networks

twinny

The most no-nonsense, locally or API-hosted AI code completion plugin for Visual Studio Code - like GitHub Copilot but completely free and 100% private.

seqkit

A cross-platform and ultrafast toolkit for FASTA/Q file manipulation

Flye

De novo assembler for single molecule sequencing reads using repeat graphs

maftools

Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.

krakenuniq

🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results

sopa

Technology-invariant pipeline for spatial omics analysis (Xenium / MERSCOPE / CosMx / PhenoCycler / MACSima / Hyperion) that scales to millions of cells

scimilarity

A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to represent new studies without additional training.

openst

Open-ST: profile and analyze tissue transcriptomes in 3D with high resolution in your lab

ggvolc

𝐠𝐠𝐯𝐨𝐥𝐜 effortlessly translates differential expression datasets and RNAseq data into informative volcano plots. Highlight genes of interest with unprecedented ease. With just a single line of code, visualize complex datasets, gaining deeper insights and simplifying data representation

schard

reticulate-free single cell format conversion

torchsurv

Deep survival analysis made easy

cellxgene-gateway

Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cellxgene) with multiple datasets.

pythoncms

A CMS that you understand.

STARsolo

wrapper scripts for convenient STARsolo processing of 10X and other scRNA-seq

HumanColonCancer_VisiumHD

Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using high definition spatial profiling"

SMAI

Alignability testing and integration of single-cell data

sctk

scDAPP

A end-to-end scRNA-seq analysis pipeline for cross-group comparison

Bio-Courses

Tutorials for bacterial WGS

norallm

Suplementary code for the NORA large language models

gflownet_tf2

Generative Flow Network demo in Tensorflow2

ensembl-miRNA-nf

miRNA Detection workflow developed for genebuild team at Ensembl

miTEA-HiRes

Inferring single-cell and spatial microRNA activity from transcriptomics data