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kmdata: A Database of Reconstructed Individual Patient Level Data from 153 Oncology Clinical Trials
Python package for processing image-based profiling data
Single-cell spatial proteomics analysis that makes you happy!
A scribd-downloader that actually works (although not the way you'd expect it to)
Optimal transport transforms
This Python package will allow you to replicate the experiments from our research on applying Optimal Transport as a similarity metric in between single-cell omics data.
A repository with reproducible and portable R
Tutorial on large language models for genomics
(Python, R, C/C++) Isolation Forest and variations such as SCiForest and EIF, with some additions (outlier detection + similarity + NA imputation)
Open source tools for computational pathology - Nature BME
I am sharing my code repository to understand the working and principle of working of various BioInformatics code in Python
Density estimation using Gaussian mixtures in the presence of noisy, heterogeneous and incomplete data
Significance analysis for clustering single-cell RNA-sequencing data
In this paper, we apply machine learning to create bots for Halite III, @twosigma's annual A.I. competition. We develop one classifier using Support Vector Machine with Supervised Learning, and one…
Snakemake workflow for bulk RNA sequencing with pytximport.
Feature-rich Python implementation of the tximport package for gene count estimation.
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
AUCell: score single cells with gene regulatory networks
A small library for automatically adjustment of text position in matplotlib plots to minimize overlaps.
Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information for multiplexed in situ imaging data. No training dataset wi…
Specify a github or local repo, github pull request, arXiv or Sci-Hub paper, Youtube transcript or documentation URL on the web and scrape into a text file and clipboard for easier LLM ingestion
Web-based tool converts GitHub repository contents into a single formatted text file