A python library for multi omics included bulk, single cell and spatial RNA-seq analysis.
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Dec 20, 2024 - Jupyter Notebook
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bulk-rna-seq
Here are 44 public repositories matching this topic...
EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
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Mar 28, 2024 - R
🌺 reference-free transcriptome assembly for short and long reads
rna-seq denovo-assembly single-cell-rna-seq bioinformatics-tool nanopore-sequencing bulk-rna-seq pacbio-sequencing
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Jan 28, 2024 - Java
integrated RNA-seq Analysis Pipeline
rna-seq pipeline gene-expression rna-seq-analysis differential-expression transcript-quantification single-cell-rna-seq irap bulk-rna-seq exon-quantification
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Feb 6, 2019 - R
a fully Bayesian approach to deconvolve tumor microenvironment
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Jun 20, 2022 - R
User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
machine-learning bioinformatics rna-seq computational-biology rnaseq single-cell single-cell-rna-seq bulk-rna-seq sc-rna-seq cell-cell-interaction cell-cell-communication
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Jun 14, 2024 - Python
Workflow management with Nextflow and nf-core
nextflow english lesson rna-seq-analysis workflow-management pre-alpha nf-core bulk-rna-seq carpentries-incubator
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Dec 3, 2024 - Nextflow
Analysis and Interpretation of Bulk RNA-Seq Data using Bioconductor
r english bioconductor lesson rna-seq-analysis hacktoberfest pre-alpha life-sciences bulk-rna-seq carpentries-incubator
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Dec 17, 2024 - R
single-cell and bulk RNA-seq analyses from counts → pathways → drug candidates.
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Oct 21, 2024 - R
GenoCraft: A Comprehensive, User-Friendly Web Platform for High-Throughput Omics Data Analysis and Visualization (https://arxiv.org/pdf/2312.14249)
visualization flask rna-seq genomics ngs next-generation-sequencing protein omics single-cell pathway-analysis omics-data-integration bulk-rna-seq multiomics
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Oct 29, 2024 - SCSS
a web-based R shiny application that wraps DESeq2 R package
visualization bioinformatics rna-seq r shiny rshiny deseq2 rna-seq-analysis shinyapps webapplication bulk-rna-seq
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Apr 19, 2020 - R
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.
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Dec 13, 2024 - Python
"Applied bioinformatics" is a course for Genetics Master Program at Genetics Department
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Dec 8, 2024 - R
Code base for the Grant, Morales-Nebreda, and Markov et al., “Circuits between infected macrophages and T cells in SARS-CoV-2 pneumonia” Nature (2021) paper
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Jul 18, 2023 - Jupyter Notebook
Dalmolin Group's workflow for pre-processing, alignment and quantification of bulk RNA-seq data
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Sep 30, 2024 - Groovy
Trajectory Inference of clinical data via Multi-commodity Flow
time-series crohns-disease psoriasis clinical-data multi-commodity-flow bulk-rna-seq trajectory-inference covid-19 pseudotime-ordering
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Jul 4, 2024 - Jupyter Notebook
Analysis pipeline for bulk RNA-seq data
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Aug 18, 2022 - Python
A script used to calculate percent spliced-in (PSI) values from bulk RNA sequencing data.
rna-seq rnaseq psi rna-seq-analysis bulk-rna-seq splicing rna-splicing percent-spliced-in rna-splicing-analysis
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May 27, 2022 - Shell
bulk RNA-seq of miRNA and mRNA profiling of human acute and chronic wounds
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Aug 1, 2024 - HTML
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