Main logo
?
tutorial arrow
×
Submit new tools
Share tools covering the current topic. Provide easy-to-follow guidelines to improve their usability.
Share new tools with the community
Sign up for free to promote the availability of bioinformatics tools

Splicing QTL detection software tools | RNA sequencing data analysis

Identification of genetic variants affecting splicing in RNA sequencing population studies is still in its infancy. Splicing phenotype is more complex than gene expression and ought to be treated as a multivariate phenotype to be recapitulated…
G T A T C G C T A
GLiMMPS
Desktop

GLiMMPS

A robust statistical method for detecting splicing quantitative trait loci…

A robust statistical method for detecting splicing quantitative trait loci (sQTLs) from RNA-seq data. GLiMMPS takes into account the individual variation in sequencing coverage and the noise…

G T A T C G C T A
Altrans
Desktop

Altrans

A method for relative quantification of splicing events to be used in…

A method for relative quantification of splicing events to be used in population genetics studies in discovery of alternative splicing quantitative trait loci (asQTLs). Because the phenotype is…

G T A T C G C T A
ulfasQTL
Desktop

ulfasQTL

Allows ultra-fast composite splicing quantitative trait loci (sQTL) analysis.…

Allows ultra-fast composite splicing quantitative trait loci (sQTL) analysis. ulfasQTL transforms vectors of splicing ratios to a spherical coordinate system. It uses a matrix-based computation to…

G T A T C G C T A
DRIMSeq
Desktop

DRIMSeq

Performs gene-level tests and returns p-values per gene only. DRIMSeq provides…

Performs gene-level tests and returns p-values per gene only. DRIMSeq provides two frameworks. One for the differential splicing analysis between different conditions and one for the sQTL analysis.…

G T A T C G C T A
sQTLseekeR
Desktop

sQTLseekeR

An R package to detect splicing QTLs, which are variants associated with change…

An R package to detect splicing QTLs, which are variants associated with change in the splicing pattern of a gene. Here, splicing patterns are modeled by the relative expression of the transcripts of…

G T A T C G C T A
BayesDRIMSeq
Desktop

BayesDRIMSeq

Infers genes with differential transcript usage. BayesDRIMSeq is a count-based…

Infers genes with differential transcript usage. BayesDRIMSeq is a count-based method proceeding to a transformation of the whole sequence of posterior probabilities with respect to the ordering of…

G T A T C G C T A
LeafCutter
Desktop

LeafCutter

Allows identification and quantification of novel and existing alternative…

Allows identification and quantification of novel and existing alternative splicing events by focusing on intron excisions. LeafCutter identifies variable intron splicing events from short-read…

G T A T C G C T A
IVAS
Desktop

IVAS Identification of genetic Variants affecting Alternative Splicing

Detects genomic variants affecting the alternative splicing using genotypic and…

Detects genomic variants affecting the alternative splicing using genotypic and gene expression data (RNA-seq). IVAS is an R package available on Bioconductor. It provides functions to find…

Information

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.