differential-expression-analysis

There are 2 repositories under differential-expression-analysis topic.

fgcz / prolfqua
Differential Expression Analysis tool box R lang package for omics data
proteomics-data-analysis rstats-package hypothesis-testing quality-control r-package differential-expression-analysis protein-quantification
Language:R 44
volcano3D
KatrionaGoldmann / volcano3D
An R package to plot interactive three-way differential expression analysis
bioinformatics cran differential-expression differential-expression-analysis gene-expression interactive omics package plotly rna-seq transcriptomics volcanoplots
Language:HTML 36
epigen / dea_limma
A Snakemake workflow and MrBiomics module for performing and visualizing differential (expression) analyses (DEA) on NGS data powered by the R package limma.
atac-seq bioinformatics biomedical-data-science chip-seq differential-expression-analysis limma limma-trend limma-voom rna-seq snakemake visualization volcano-plot workflow scrna-seq statistics r
Language:R 26
xinhe-lab / GSFA
R package that performs sparse factor analysis and differential gene expression discovery simultaneously on single-cell CRISPR screening data.
single-cell crispr-screen-analysis scrna-seq-analysis factor-analysis differential-expression-analysis
Language:C++ 19
epigen / dea_seurat
A Snakemake workflow and MrBiomics module for performing differential expression analyses (DEA) on (multimodal) sc/snRNA-seq data powered by the R package Seurat.
bioinformatics biomedical-data-science differential-expression-analysis scrna-seq single-cell snakemake snrna-seq visualization workflow volcano-plot
Language:R 18
bharathananth / compareRhythms
Approaches to identify Differential Rhythmicity
rstats r-package high-throughput-data-analysis circadian-rhythms differential-expression-analysis
Language:TeX 7
shehio / Computational-Biology
computational-biology smith-waterman smith-waterman-alignment gillespie-algorithm gillespie gradient-descent gradient-descent-algorithm gradient-descent-implementation genome-analysis genome-alignment differential-analysis gene-expression alternative-splicing differential-expression differential-expression-analysis single-cell-analysis single-cell-genomics viterbi-algorithm viterbi-decoder bowtie2
Language:Jupyter Notebook 6
OpenOmics / modr
An awesome Oxford Nanopore Pipeline for direct RNA-sequencing
direct-rna-sequencing oxford-nanopore rna-editing rna-modifications singularity snakemake-pipeline bioinformatics novel-transcripts pipeline quality-control transcriptomics known-transcripts polya-tail-length-estimation alternative-splicing-analysis differential-expression-analysis
Language:Python 5
jungsoh / transcriptomics-course
Material used for a course on transcriptomics, covering transcriptome assembly, transcriptome functional annotation, differential expression analysis, and functional annotation data mining
transcriptomics transcriptome-assembly transcriptome-annotation de-novo-assembly differential-expression-analysis functional-annotation annotation-data
Language:HTML 4
pentalpha / r-peridot
Software for intuitively doing Differential Gene Expression (DGE) analysis on Windows and GNU\Linux, based on R packages.
differential-expression differential-expression-analysis gene-expression rna-seq-analysis rna-seq-pipeline bioinformatics bioinformatics-pipeline bioconductor bioinformatics-analysis bioinformatics-tool
Language:Java 4
euxhenh / grinch
A library for differential expression and gene set enrichment analysis based on hydra and pydantic.
clustering differential-expression-analysis gene-set-enrichment marker-genes single-cell single-cell-analysis
Language:Python 3
yotammarton / bioinformatics_course
GWAS of Postmortem Brain Samples Sheds Light on the Development of Schizophrenia and Bipolar Disorder
schizophrenia bipolar-disorder mapk gomafu miat bioin differential-expression-analysis pathway-enrichment-analysis wgcna
Language:HTML 2
jawa23bio / RNA-Seq
RNA-Seq analysis pipeline for investigating transcriptional changes during mammalian cardiac regeneration.
differential-expression-analysis gene-expression-analysis rna-seq-pipeline transcriptional-profiling
Language:HTML 1
MendenLab / miRNAInt_Ferroptosis
Multi-omics differential expression and integration using PPI networks
differential-expression-analysis multiomics omics-data-integration protein-protein-interaction-network
Language:R 1
paulynamagana / Gene_Analysis
Analysis of data from GEO
gene-analysis-algorithms dna-methylation differential-expression-analysis
Language:R 1
sivkri / miRNASeq-DE-Analysis-QC
Performing RNA-Seq data analysis and quality control using DESeq2 in R.
deseq2 deseq2-analysis differential-expression-analysis quality-control rna-seq rna-seq-analysis rna-seq-data rna-seq-pipeline visualization
Language:R 1
abarrenos / EasyDEA
EasyDEA: An Automated Tool for Differential Expression Analysis
bioinformatics differential-expression-analysis rna-seq
Language:R 0
Alejandro2195 / Differential-Expression-Analysis-in-R
In this lab we will perform a differential expression analysis starting from scratch. Doxorubicin is a commonly prescribed cancer drug, but one of its side effects is cardiotoxicity. This drug damages heart cells by binding to the protein topoisomerase-II beta, or Top2b.
bioconductor bioconductor-packages bioinformatics biostatistics differential-expression differential-expression-analysis rstudio
Language:HTML 0
ATA82 / MotifSearcher
Here, we describe and provide an RNA-Seq analysis of a RIP assay to understand the mechanism of AML del(9q) progression. (Ali T. Abdallah)
aml aml-progression deseq2 differential-expression-analysis hnrnp-k motif-matching sequence-logos
Language:R 0
daniellakavanna / Transcriptomics-DE-Analysis
Bioinformatics - Differential Expression Analysis
bioinformatics differential-expression-analysis exploratory-data-analysis
Language:R 0
EliasFarr / SPOT
SPOT - Swift Profiling Of Transcriptomes - a shiny app for gene ranking according to user-defined expression profiles
transcriptomics shiny-apps expression gene-expression gene-expression-profiles gene-ranking differential-expression-analysis easy-to-use fast
Language:R 0
merlinis12 / RNA-Seq-Data-Analysis-in-R
RNA-Seq Data Analysis in R: From Raw Counts to Differential Expression Analysis
bioinformatics deseq2 deseq2-analysis differential-expression differential-expression-analysis edger limma limma-voom rna rna-seq rna-seq-analysis rna-seq-pipeline rnaseq rnaseq-data rnaseq-pipeline rnaseq-workshop
Language:HTML 0
programerkotik / Differential-Gene-Expression-Analysis
Differential gene expression analysis exercise for the course Analytical Methods in Cancer Genomics 2023. The goal is to perform analysis of RNA-Seq data.
differential-expression-analysis rna-seq rna-seq-analysis
Language:R 0
Sheval-Lab / ind_Tat_in_B_cells
Differential gene expression and gene enrichment analyses of B-cell line with ectopic expression of HIV-1 Tat protein
differential-expression-analysis gsea hiv-1
Language:R 0
swiri021 / Difference_test_with_permutation
Difference test with Gene expression by permutation method( by T-test and median test)
gene bioinformatics ttest deg differential-expression-analysis
Language:Python 0
swiri021 / NWPV2
Method of Combined P-value to identify Differential Expressed Gene in dataset
bioinformatics differential-expression-analysis p-value nwpv
Language:Python 0
trinebera / N_oceanica_RNA-Seq_Analysis
Differential gene expression analysis of Nannochloropsis oceanica growth with or without beneficial/harmful bacteria.
differential-expression-analysis rna-seq algae deseq2 kallisto
Language:Roff 0
upendrabhattarai / denovo-RNA-Seq-On-Nesi
This is a compilation of my scripts for denovo-RNA-Seq assembly, annotation, and get count metrics for Differential gene expression analysis in Nesi hpc.
rna-seq-pipeline denovo-assembly differential-expression-analysis nesi
0
animesh / diffExpr
R Shiny app for differential-expression analysis using T-test. The app is automatically deployed via GH Actions to shinyapp.io available as https://fuzzylife.shinyapps.io/diffExpr/
proteomics massspectrometry ttest differential-expression-analysis
Language:R
dominhduy09 / maple
maple differential equation
differential-equations differential-expression-analysis maple maple-code maple-examples maple-programming-language maple-example
eriklarsen4 / Itch
bulkrna-seq calcium-imaging differential-expression-analysis geneontology geneset-enrichment-analysis ggplot2 heatmap itch ma-plot pruriception ratiometric rna-seq rna-seq-analysis transcriptional-profiling volcano-plot weighted-linear-regression
insilicolife / micti
MICTI- Marker gene Identification for Cell Type Identity
marker-genes heterogeneous-cell-populations differential-expression-analysis feature-extraction
Language:Jupyter Notebook
kirushka / Tat_in_B_cells
Differential gene expression and gene enrichment analyses of B-cell line with ectopic expression of HIV-1 Tat protein
differential-expression-analysis gsea hiv-1
Language:R

differential-expression-analysis

fgcz / prolfqua

KatrionaGoldmann / volcano3D

epigen / dea_limma

xinhe-lab / GSFA

epigen / dea_seurat

bharathananth / compareRhythms

shehio / Computational-Biology

OpenOmics / modr

jungsoh / transcriptomics-course

pentalpha / r-peridot

euxhenh / grinch

yotammarton / bioinformatics_course

jawa23bio / RNA-Seq

MendenLab / miRNAInt_Ferroptosis

paulynamagana / Gene_Analysis

sivkri / miRNASeq-DE-Analysis-QC

abarrenos / EasyDEA

Alejandro2195 / Differential-Expression-Analysis-in-R

ATA82 / MotifSearcher

daniellakavanna / Transcriptomics-DE-Analysis

EliasFarr / SPOT

merlinis12 / RNA-Seq-Data-Analysis-in-R

programerkotik / Differential-Gene-Expression-Analysis

Sheval-Lab / ind_Tat_in_B_cells

swiri021 / Difference_test_with_permutation

swiri021 / NWPV2

trinebera / N_oceanica_RNA-Seq_Analysis

upendrabhattarai / denovo-RNA-Seq-On-Nesi

animesh / diffExpr

dominhduy09 / maple

eriklarsen4 / Itch

insilicolife / micti

kirushka / Tat_in_B_cells