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    36 repositories

    • bcell

      Public
      Gene Regulatory Network of early B cell differentiation in Humans
      R
      •0•0•0•0•Updated May 19, 2025May 19, 2025

    • Benchmarking-SegmentationMethods-ST

      Public
      R
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated May 8, 2025May 8, 2025

    • Transformers-for-Multiscale-Genomics

      Public
      GNU General Public License v3.0
      •0•0•0•0•Updated Feb 21, 2025Feb 21, 2025

    • A-Primer-on-Transformers-in-Single-Cell-Genomics

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Feb 21, 2025Feb 21, 2025

    • C2_ACLF_2025

      Public
      R
      •0•0•0•0•Updated Feb 2, 2025Feb 2, 2025

    • GeneSetCluster2.0

      Public
      GeneSetCluster 2.0: a comprehensive toolset for summarizing and integrating gene-sets analysis
      R
      •
      GNU General Public License v3.0
      •0•4•0•0•Updated Jan 30, 2025Jan 30, 2025

    • TransformersInGenomicsPapers

      Public
      A curated repository designed to serve as a comprehensive guide for researchers interested in the intersection of Transformer models and genomics. This repository compiles key academic papers that demonstrate the application of transformer-based models in genomics, providing users with a valuable resource to navigate this rapidly evolving field.
      Python
      •2•23•0•0•Updated Dec 18, 2024Dec 18, 2024

    • LLM_assistant_mini-review

      Public
      R
      •0•0•0•0•Updated Oct 16, 2024Oct 16, 2024

    • ClustAll

      Public
      R
      •1•1•0•0•Updated Oct 16, 2024Oct 16, 2024

    • GeneSetCluster

      Public
      a tool for summarizing and integrating gene-set analysis results
      HTML
      •
      GNU General Public License v3.0
      •4•16•0•2•Updated Aug 14, 2024Aug 14, 2024

    • scbert-reusability

      Public
      Reusability report of scBERT
      Python
      •
      GNU General Public License v3.0
      •3•14•0•0•Updated Jul 14, 2024Jul 14, 2024

    • DockerSeminar

      Public
      R
      •0•0•0•0•Updated Feb 12, 2024Feb 12, 2024

    • GSE198256_erxercise

      Public
      GNU General Public License v3.0
      •0•0•0•0•Updated Jan 30, 2024Jan 30, 2024

    • jesteg.github.io

      Public
      1•0•0•0•Updated Dec 10, 2023Dec 10, 2023

    • ClustALL_AD

      Public
      ClustALL: A robust clustering strategy for stratification of patients with acutely decompensated cirrhosis.
      R
      •0•1•0•0•Updated Nov 17, 2023Nov 17, 2023

    • X-PAND

      Public
      X-PAND seeks to enable the “big leap” in correcting defective genes or instructing novel therapeutic functions into hematopoietic stem cells (HSC) by precise genome editing.
      0•0•0•0•Updated Mar 7, 2023Mar 7, 2023

    • BMN_characterization

      Public
      R
      •1•3•0•0•Updated Mar 5, 2023Mar 5, 2023

    • LIBRA

      Public
      Machine Translation between paired Single Cell Multi Omics Data
      HTML
      •
      GNU General Public License v3.0
      •4•6•0•0•Updated Nov 17, 2022Nov 17, 2022

    • Multiple_MM

      Public
      R
      •0•0•0•0•Updated Feb 25, 2022Feb 25, 2022

    • FANCONI

      Public
      R
      •0•0•0•0•Updated Feb 24, 2022Feb 24, 2022

    • SC_multiom

      Public
      R
      •0•0•0•0•Updated Feb 24, 2022Feb 24, 2022

    • GenomeBrowser

      Public
      0•0•0•0•Updated May 18, 2021May 18, 2021

    • RNASEQ-Pipeline

      Public
      Description of the different step in Pipeline RNAseq Single End. From fastq to count tables.
      R
      •2•1•0•0•Updated Apr 3, 2020Apr 3, 2020

    • rnaSeqBulkSnake

      Public
      bulk RNA-seq processing pipeline using DESeq2, edgeR, Voom, implemented with snakemake
      R
      •0•0•0•0•Updated Sep 10, 2019Sep 10, 2019

    • RNASEQ-Pair-end-Pipeline

      Public
      Description of the different step in Pipeline RNAseq Pair End. From fastq to count tables. Then normalize and obtain the genes highly differentiated.
      R
      •0•3•0•0•Updated Aug 21, 2019Aug 21, 2019

    • excelerate-scRNAseq

      Public
      Single RNA-seq data analysis with R (Finland, May, 2019)
      HTML
      •106•2•0•0•Updated Jul 9, 2019Jul 9, 2019

    • SnapATAC

      Public
      Single Nucleus Analysis Package for ATAC-seq
      R
      •
      GNU General Public License v3.0
      •132•0•0•0•Updated Apr 19, 2019Apr 19, 2019

    • singlecelldb

      Public
      An actionable database of publicly available single-cell RNA-seq data
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •9•41•0•0•Updated Apr 13, 2019Apr 13, 2019

    • singlecelldb-sample-app

      Public
      Sample Django app for SingleCell DB project
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Feb 10, 2019Feb 10, 2019

    • SimulatedData

      Public
      Python
      •0•0•0•0•Updated Dec 10, 2018Dec 10, 2018