LFCseq specifications

Information


Unique identifier OMICS_07004
Name LFCseq
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Publication for LFCseq

LFCseq citations

 (2)
library_books

A Normalization Free and Nonparametric Method Sharpens Large Scale Transcriptome Analysis and Reveals Common Gene Alteration Patterns in Cancers

2017
Theranostics
PMCID: 5562223
PMID: 28824723
DOI: 10.7150/thno.19425

[…] Seq , LFCseq and NOISeq show less dependence on the distribution assumption, cross-sample normalization is still a common step in current non-parametric and parametric methods. For example, SAMSeq, LFCseq and NOISeq use Upper Quartile, TMM (The trimmed mean of M-values), and quantile, respectively, for normalization, which are commonly used in parametric methods -. However, accurately normalizin […]

library_books

Dynamics in Transcriptomics: Advancements in RNA seq Time Course and Downstream Analysis

2015
Comput Struct Biotechnol J
PMCID: 4564389
PMID: 26430493
DOI: 10.1016/j.csbj.2015.08.004

[…] ed, adding a dispersion parameter to be more flexible accounting for biological variance and appropriately identifying DEGs .Several non-parametric methods like NOISeq , or more recently NPEBseq and LFCseq offer an alternative way to normalize and model expression data, which are not fitting with negative binomial or Poisson distributions. Nevertheless, these methods are usually more computation […]

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