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Lists (32)
1KO
8 repositories
2KO
7 repositories
Cancer evolution
16 repositories
Cancer evolution/tree
8 repositories
Chem-informatics
4 repositories
data/EDA
5 repositories
docs
18 repositories
Fast
40 repositories
Io
21 repositories
IO/config
2 repositories
Io/data
9 repositories
io/sequence
11 repositories
Jupyter
32 repositories
llms
2 repositories
Log
6 repositories
multi-omics
8 repositories
multi-omics/expression
3 repositories
mutations/LOF
7 repositories
networks/predictions
17 repositories
Protein
16 repositories
Query/genome
5 repositories
query/sequence-data
2 repositories
single-cell/heterogeneity
5 repositories
Stats
36 repositories
Stats/enrich
3 repositories
transcriptomics
10 repositories
transcriptomics/got
4 repositories
🔬/viewer
4 repositories
Viz
17 repositories
Viz/interactive
11 repositories
viz/network
11 repositories
viz/sequence
10 repositories
Starred repositories
dseq: Deep sequencing analysis in dataframes
bedtools-like functionality for interval sets in rust
Python 3.8+ toolbox for submitting jobs to Slurm
pipreqs - Generate pip requirements.txt file based on imports of any project. Looking for maintainers to move this project forward.
Meta Lingua: a lean, efficient, and easy-to-hack codebase to research LLMs.
Interesting Scientific Idea Generation Using Knowledge Graphs and LLMs: Evaluations with 100 Research Group Leaders
parag🎆Interactive visualization of higher-order graphs in Python
MISO: Mixture of Isoforms model for RNA-Seq isoform quantitation
A Computational Workflow for Designing Libraries of sgRNAs for CRISPR-Mediated Base Editing, and much more
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
A smart library that automatically positions elements depending on their size in a grid to create responsive and beautiful layouts.
A modern cookiecutter template for Python projects that use uv for dependency management
Download FASTQ files from SRA or ENA repositories.
Pipeline to fetch metadata and raw FastQ files from public databases
A script to make downloading of SRA/GEO data easier
TRex: a computational method to associate changes in exon-centric splicing events with experimental variables form complex experimental designs
Package for fetching metadata and downloading data from SRA/ENA/GEO
Visualize and compare datasets, target values and associations, with one line of code.
Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms
Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneity. Pairtree focuses on scaling to many more cancer samples a…