fishpond

Bioc current

Fishpond: downstream methods and tools for expression data

v2.18.0 · software · GPL-2

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Release Lineage

Entered 3.9 · May 3, 2019

Current · Requires R 4.6

1.0 In 15 of 49 releases 3.23

Description

Fishpond contains methods for differential transcript and gene expression analysis of RNA-seq data using inferential replicates for uncertainty of abundance quantification, as generated by Gibbs sampling or bootstrap sampling. Also the package contains a number of utilities for working with Salmon and Alevin quantification files.

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Topics

Software › Technology › Sequencing

Software › Technology › Sequencing › RNASeq

Software › AssayDomain › GeneExpression

Software › AssayDomain › Transcription

Software › WorkflowStep › Normalization

Software › StatisticalMethod › Regression

Software › WorkflowStep › MultipleComparison

Software › WorkflowStep › BatchEffect

Software › WorkflowStep › Visualization

Software › BiologicalQuestion › DifferentialExpression

Software › BiologicalQuestion › DifferentialSplicing

Software › BiologicalQuestion › AlternativeSplicing

Software › Technology › SingleCell

People

Michael Love author maintainer
Jeroen Gilis contributor
Dongze He contributor
Joseph Ibrahim author contributor
Steve Lianoglou contributor
Rob Patro author contributor
Noor Pratap Singh contributor
Hirak Sarkar contributor
Avi Srivastava author contributor
Scott Van Buren contributor
Wes Wilson contributor
Euphy Wu contributor
Anqi Zhu author contributor