|
R |
9 |
A differential and enrichment analyses pipeline for bulk ATAC-seq (and RNA-seq) |
May 23, 2022 |
|
R |
6 |
One liner analyses and visualizations for bulk RNA-seq and ChIP-seq data |
Aug 10, 2022 |
|
Shell |
3 |
RNA-seq analyses. |
May 16, 2022 |
|
R |
14 |
single-cell and bulk RNA-seq analyses from counts → pathways → drug candidates. |
Jan 31, 2023 |
|
Python |
20 |
Bulk RNA-seq analysis. |
Aug 07, 2022 |
|
HTML |
36 |
Introduction to bulk RNA-seq |
Aug 08, 2022 |
|
Shell |
4 |
RNA-seq, smRNA-seq, scRNA-seq & ATAC-seq workflows for @Cornell-Trex |
Oct 14, 2021 |
|
Python |
12 |
Normalization of RNA-seq gene expression |
Apr 21, 2023 |
|
Shell |
2 |
Yet another Grape RNA-Seq analyses pipeline |
Jun 03, 2018 |
|
R |
7 |
Scripts for RNA seq analysis |
Apr 15, 2022 |
|
Python |
16 |
scripts for RNA-Seq analysis |
Mar 06, 2023 |
|
Python |
8 |
The gEAR Portal was created as a data archive and viewer for gene expression data … |
Jan 17, 2023 |
|
R |
9 |
RNA-seq analysis scripts |
Apr 04, 2022 |
|
Python |
3 |
Snakemake workflow to analyze bulk RNA-seq |
Nov 08, 2022 |
|
Python |
80 |
phasing and Allele Specific Expression from RNA-seq |
Oct 11, 2022 |
|
Shell |
3 |
ChiP-seq and DNase-seq ,Bulk RNA-seq,scRNA-seq processing pipeline via R and shell |
Jun 07, 2022 |
|
Jupyter Notebook |
3 |
Analysis of RNA-seq recompute expression data |
Aug 24, 2017 |
|
Python |
6 |
Analysis and Interpretation of Bulk RNA-Seq Data using Bioconductor |
Jul 28, 2022 |
|
None |
2 |
Analysis and Interpretation of Bulk RNA-Seq Data using Bioconductor |
Jun 10, 2023 |
|
R |
4 |
Scripts to analyze single-cell and bulk RNA & ChIP-seq of TNBC under drug treatment |
Mar 31, 2023 |
|
Python |
19 |
Robust, tested workflows for RNA-seq, ChIP-seq and other high-throughput sequencing analysis |
Apr 10, 2023 |
|
Dockerfile |
11 |
Exercises for training scientists to perform some RNA-seq analyses. |
Feb 02, 2022 |
|
Python |
155 |
Differential expression analysis for single-cell RNA-seq data. |
Apr 06, 2023 |
|
None |
2 |
Differential expression analysis for single-cell RNA-seq data |
Apr 14, 2021 |
|
R |
9 |
Differential expression analysis for single-cell RNA-seq data |
Nov 15, 2022 |
|
Python |
84 |
:snake: Snakefiles for common RNA-seq data analysis workflows. |
Mar 13, 2023 |
|
None |
5 |
The best-practices workflow for single-cell RNA-seq analysis as determined by the community. |
Apr 04, 2022 |
|
Python |
5 |
snakemake workflow for bulk RNA-seq workflow using STAR-edgeR |
Oct 25, 2022 |
|
Jupyter Notebook |
1047 |
Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best … |
Apr 23, 2023 |
|
R |
4 |
A nextflow pipeline for performing bacterial RNA-Seq data analysis. |
Apr 17, 2023 |
|
None |
57 |
RNA-seq workflow: gene-level exploratory analysis and differential expression |
Apr 27, 2023 |
|
R |
2 |
Collection of Bulk RNA-Seq Experiments With Many Replicates |
Jan 18, 2021 |
|
R |
3 |
Tools for finding Total RNA Expression Genes in single nucleus RNA-seq data |
Oct 31, 2022 |
|
Python |
47 |
Pileup biallelic SNPs from single-cell and bulk RNA-seq data |
Aug 11, 2022 |
|
Python |
18 |
Rna-seq pipeline, From FASTQ to differential expression analysis... |
Oct 08, 2020 |
|
None |
8 |
A treatise on quantification and differential expression from RNA-seq data |
Nov 05, 2015 |
|
Shell |
8 |
Scripts for coding and best practices |
Oct 18, 2021 |
|
HTML |
2 |
script for RNA-seq and Chip-seq |
Apr 17, 2021 |
|
R |
2 |
Analysis of LPS (bulk) RNA-seq data from Chevrier lab. |
May 16, 2023 |
|
R |
91 |
Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets |
Apr 11, 2023 |
|
Perl |
10 |
Code base for profiling highly replicated differential gene expression RNA-seq. |
Jan 09, 2023 |
|
R |
9 |
Single cell analysis tools for expression from RNA-seq in R |
Feb 10, 2024 |
|
JavaScript |
42 |
ARCHS4 RNA-seq processing scripts and web server pages. |
Nov 01, 2021 |
|
Python |
254 |
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA. |
Apr 26, 2023 |
|
HTML |
29 |
Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses |
May 06, 2022 |
|
Python |
32 |
A fully automated gene annotator from RNA-Seq expression data |
May 13, 2022 |
|
None |
38 |
Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project |
Aug 28, 2022 |
|
HTML |
71 |
A simple RNA-Seq differential gene expression pipeline using Nextflow |
May 15, 2023 |
|
Groovy |
6 |
Dalmolin Group's workflow for pre-processing, alignment and quantification of bulk RNA-seq data |
Dec 14, 2023 |
|
C++ |
348 |
RSEM: accurate quantification of gene and isoform expression from RNA-Seq data |
Apr 27, 2023 |