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transcript-quantification

Here are 8 public repositories matching this topic...

bambu

GoekeLab / bambu

Reference-guided transcript discovery and quantification for long read RNA-Seq data

rna-seq r nanopore bioconductor transcriptomics rna-seq-analysis transcript-quantification bambu long-reads nanopore-sequencing transcript-reconstruction

Updated Aug 11, 2026
R

mortazavilab / TALON

Technology agnostic long read analysis pipeline for transcriptomes

pacbio transcriptome oxford-nanopore transcript-quantification

Updated Jan 25, 2024
Python

nunofonseca / irap

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

Updated Feb 6, 2019
R

GoekeLab / bambu-pipe

Transcript discovery and quantification for long read single cell and spatial transcriptomics data using Bambu

rna-seq nanopore pipeline genomics nextflow pacbio transcriptomics single-cell transcript-quantification bambu isoform-quantification spatial-transcriptomics long-read-sequencing long-read-rna-seq transcript-discovery

Updated Aug 27, 2026
Nextflow

eudoraleer / scasa

SCASA: Single cell transcript quantification tool

transcriptomics single-cell transcript-quantification single-cell-rna-seq single-cell-analysis

Updated Nov 24, 2023
R

Kuanhao-Chao / Transcript_Quantifier_Assessment

🩺 Assessing StringTie, Salmon, and Kallisto with simulated RNA-Seq reads with noises introduced in read- and annotation-level.

rna-seq assembly gtex transcriptomics read-simulation transcript-quantification transcript-assembly transcript-noise

Updated May 1, 2022
Shell

Vivianstats / MSIQ

Joint modeling of multiple RNA-seq samples for accurate isoform quantification

rna-seq transcript-quantification isoform-quantification

Updated Feb 14, 2018
R

BirolLab / rsempipeline

A pipeline for running rsem analysis on thousands of samples

python geo ncbi sra rsem transcript-quantification

Updated Feb 22, 2019
Python

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