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rna-sequencing

Here are 39 public repositories matching this topic...

guma44 / GEOparse

Python library to access Gene Expression Omnibus Database (GEO)

bioinformatics rna-seq microarray rna-sequencing geo-database high-throughput-sequencing htseq

Updated Apr 23, 2024
Jupyter Notebook

EpiNano

novoalab / EpiNano

Detection of RNA modifications from Oxford Nanopore direct RNA sequencing reads (Liu*, Begik* et al., Nature Comm 2019)

nanopore rna-sequencing m6a m6a-rna-modifications direct-rna

Updated Apr 27, 2024
Python

SciLifeLab / NGI-RNAseq

Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.

bioinformatics rna-seq pipeline nextflow rnaseq rna-sequencing

Updated Aug 20, 2018
Groovy

sunyumail93 / PipeRNAseq

A comprehensive pipeline for RNAseq data analysis

bioinformatics gene-expression bioinformatics-pipeline rnaseq rna rna-sequencing rna-seq-analysis bioinformatics-analysis rnaseq-pipeline transcriptome-analysis

Updated Nov 20, 2023
Shell

lweasel / piquant

A pipeline to assess the quantification of transcripts.

bioinformatics rna-sequencing transcripts quantification

Updated Jun 6, 2022
Python

darelab2014 / Dinopore

DInoPORE: Direct detection of INOsines in native RNA with nanoPORE sequencing

nanopore detection deeplearning rna-sequencing direct-rna inosine

Updated Apr 11, 2023
R

smaegol / nanotail

R package for visualization and exploratory analysis of Oxford Nanopore direct RNA seq based polyA predictions

bioinformatics nanopore shiny rna rna-sequencing polya-tail polya nanopore-sequencing nanopolish

Updated Jan 29, 2024
R

jeongu / Cancer-Vaccine-Pipeline

Constructing Neoantigen Vaccine Pipeline with pVACtools

rna-sequencing whole-exome-sequencing pvac-seq cancer-immunotherapy

Updated May 12, 2019
Shell

ninetails

LRB-IIMCB / ninetails

An R package for finding non-adenosine residues in poly(A) tails of ONT direct RNA sequencing reads

bioinformatics r nanopore neural-network tensorflow rna-sequencing polya reticulate nanopore-sequencing

Updated Apr 3, 2024
R

GSECA

matteocereda / GSECA

Gene Set Enrichment Class Analysis for heterogeneous RNA sequencing data

gene-sets big-data tcga rna-sequencing pancancer gsea fmm cohorts big-data-analytics finite-mixture variance-analysis handiling-heteogeneity gene-set-analysis data-discretization

Updated Aug 13, 2020
R

ZihengZZH / survival-analysis

discovering novel biomarkers in RNA-Seq data with tree-based models and survival analysis

random-forest xgboost survival-analysis rna-sequencing gradient-boosting biomarkers tcga-brca

Updated Feb 9, 2019
Python

KrasnitzLab / RAIDS

Accurate and robust inference of genetic ancestry from cancer-derived molecular data across genomic platforms

rna-seq genomics inference ancestry cancer-genomics r-language r-package rna-sequencing whole-genome-sequencing exome-sequencing

Updated Oct 13, 2023
R

ptdolan / CirQuestDSV

Annotation and Analysis of Deep Sequencing Variants from CirSeq

python ggplot2 r analysis sequencing deep rna-sequencing population-genetics

Updated Feb 16, 2018
R

marislab / create-pptc-pdx-oncoprints

As part of an overall strategy for improving therapies for childhood cancers, the PPTC seeks to develop models for the types of tumors that will be encountered in early phase clinical testing by establishing patient derived xenografts (PDXs) from high-risk childhood cancers refractory to current standard of care treatments. Genomic profiling of …

classifier clustering fusion rna-sequencing ethnicity-analysis exome-sequencing mutational-signatures

Updated Dec 11, 2019
R

vniems / BD-Lithium

A collection of source codes for network-based multi-omics analysis using integrated genome-wide association studies (GWAS) and transcriptomic data to identify genetic contribution into lithium response in patients with bipolar disorder (BD).

lithium rna-sequencing network-analysis transcriptomics ipsc pathview multi-omics bipolar-disorder drug-response functional-enrichment genome-wide-association-studies pharmacogenetics induced-pluripotent-stem-cells

Updated Jun 25, 2022
HTML

mrdanieleze / Genomic-Sequence-Comparison-Code-GSCC-

This repository houses the Genomic Sequence Comparison Code (GSCC), a collection of Python scripts designed for genomic sequence analysis. Whether you're comparing suspected sequences with known reference sequences or delving into bioinformatics, GSCC provides versatile tools for pairwise alignment. Feel free to explore!

bioinformatics computational-biology python3 biopython rna-sequencing dna-sequences sequence-alignment bioinformatics-scripts genomic-data-analysis pairwise-alignment bioinformatics-tool genomics-analysis

Updated Mar 19, 2024
Python

tluquez / QUARS

QUAlity control for RNA_Seq, a nextflow pipeline

bioinformatics quality-control rna-seq nextflow rna-sequencing rna-seq-analysis rna-seq-pipeline rna-seq-qc

Updated Jan 31, 2020
Groovy

safisher / ornaseq

Ontology of RNA Sequencing

rna-seq genomics ontology rnaseq rna-sequencing rna-seq-analysis obofoundry

Updated Oct 27, 2022
Makefile

leifursteinn / DNAandRNATranslation

Python based script which enables you to translate DNA or RNA, targeted towards high school biology. U=A G=C and exc.

biology rna-sequencing dna-sequencing

Updated Nov 24, 2020
Python

kicheolkim / RNAseq_FullTx

RNA-Seq data analysis: whole transcriptome, stranded, dUTP method

rna-seq rnaseq rna-sequencing rna-seq-analysis rnaseq-pipeline

Updated Sep 13, 2021
R

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