gene-expression

Open-source projects categorized as gene-expression
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Language: + Python + C++ + Jupyter Notebook
Topics: single-cell rna-seq Bioinformatics C++ mendelianrandomization
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Top 5 gene-expression Open-Source Projects

  • awesome-single-cell

    Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

  • salmon

    🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment (by COMBINE-lab)

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  • enformer-pytorch

    Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch

  • genome_integration

    MR-link and genome integration. genome_integration is a repository for the analysis of genomic data. Specifically, the repository implements the causal inference method MR-link, as well as other Mendelian randomization methods.

  • gEAR

    The gEAR Portal was created as a data archive and viewer for gene expression data including microarrays, bulk RNA-Seq, single-cell RNA-Seq and more. (by IGS)

    • Project mention: How can I read single cell data into scanpy? txt files | /r/bioinformatics | 2023-06-23

  • SaaSHub

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NOTE: The open source projects on this list are ordered by number of github stars. The number of mentions indicates repo mentiontions in the last 12 Months or since we started tracking (Dec 2020).

gene-expression related posts

  • Staying up to date with processes/technology.

    4 projects | /r/bioinformatics | 21 Aug 2022

  • [D] Is anyone working on open-sourcing Dall-E 2?

    5 projects | /r/MachineLearning | 25 Apr 2022

  • Ex Python users who switched to 100% R (or almost)

    1 project | /r/datascience | 1 Feb 2022

  • Guidance regarding bulk and scRNA seq analysis.

    1 project | /r/bioinformatics | 26 May 2021

Index

What are some of the best open-source gene-expression projects? This list will help you:

Project Stars
1 awesome-single-cell 2,927
2 salmon 734
3 enformer-pytorch 392
4 genome_integration 11
5 gEAR 10

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