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RNA-Seq Blog Transcriptome Research & Industry News

SNP Detection

AssociVar – detecting mutations based on associations from direct RNA sequencing data

One of the key challenges in the field of genetics is the inference of haplotypes from next generati...
Cell lineage inference from SNP and scRNA-Seq data

Several recent studies focus on the inference of developmental and response trajectories from single...
VaDiR – an integrated approach to variant detection in RNA

Advances in next-generation DNA sequencing technologies are now enabling detailed characterization o...
GROM – lightning-fast genome variant detection

Current human whole genome sequencing projects produce massive amounts of data, often creating signi...
Halvade-RNA – a parallel, multi-node RNA-seq variant calling pipeline based on the GATK Best Practices recommendations

Given the current cost-effectiveness of next-generation sequencing, the amount of DNA-seq and RNA-se...

The GATK Best Practices for variant calling on RNAseq

May 6, 2014 Leave a comment 13,771 Views

by Geraldine_VdAuwera at GATK Best Practices workflow for RNAseq This workflow is intended to be run per-sample; joint calling on RNAseq is not supported yet, though that is on our roadmap. Please see the new document here for full details ...

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RNA-Seq Blog Transcriptome Research & Industry News

SNP Detection

AssociVar – detecting mutations based on associations from direct RNA sequencing data

Cell lineage inference from SNP and scRNA-Seq data

VaDiR – an integrated approach to variant detection in RNA

GROM – lightning-fast genome variant detection

Halvade-RNA – a parallel, multi-node RNA-seq variant calling pipeline based on the GATK Best Practices recommendations

The GATK Best Practices for variant calling on RNAseq

Featured RNA-Seq Job – Computational Biologist

Evaluation of differential splicing tools for RNA-seq studies

CDSeq – A novel complete deconvolution method for dissecting heterogeneous samples using gene expression data

Researchers use RNA-Seq to discover potential new treatment for parasite disease

Rutgers Study Achieves Highest Precision and Lowest Error Rates in mRNA Discoveries Using a Robust Bioinformatics Tool

SparK: Publication-Quality NGS plotting tool

Efficient depletion of ribosomal RNA for RNA sequencing in planarians