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NxtIRFcore

Bioc removed

Core Engine for NxtIRF: a User-Friendly Intron Retention and Alternative Splicing Analysis using the IRFinder Engine

v1.6.0 · MIT + file LICENSE
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Release Lineage

Entered 3.14 · Oct 27, 2021

Removed after 3.17 · Apr 26, 2023

1.0 In 4 of 49 releases 3.23

Description

Interactively analyses Intron Retention and Alternative Splicing Events (ASE) in RNA-seq data. NxtIRF quantifies ASE events in BAM files aligned to the genome using a splice-aware aligner such as STAR. The core quantitation algorithm relies on the IRFinder/C++ engine ported via Rcpp for multi-platform compatibility. In addition, NxtIRF provides convenient pipelines for downstream analysis and publication-ready visualisation tools. Note that NxtIRFcore is now replaced by SpliceWiz in Bioconductor 3.16 onwards.

Code

Code metrics have not been computed for this package yet.

Topics

Software
Software › ResearchField › Transcriptomics
Software › Technology › Sequencing › RNASeq
Software › BiologicalQuestion › AlternativeSplicing
Software › BiologicalQuestion › Coverage
Software › BiologicalQuestion › DifferentialSplicing

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