Tag: Smoothing

netSmooth v0.1.0 – A Network smoothing based method for single cell RNA-seq

netSmooth v0.1.0

:: DESCRIPTION

netSmooth is an R package for network smoothing of single cell RNA sequencing data. Using gene interaction networks such as protein- protein interactions as priors for gene co-expression, netsmooth improves cell type identification from noisy, sparse scRNA-seq data.

::DEVELOPER

Bioinformatics & Omics Data Science platform

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows / MacOsX
  • R
  • BioConductor

:: DOWNLOAD

netSmooth

:: MORE INFORMATION

Citation

Ronen J, Akalin A.
netSmooth: Network-smoothing based imputation for single cell RNA-seq.
F1000Res. 2018 Jan 3;7:8. doi: 10.12688/f1000research.13511.3. PMID: 29511531; PMCID: PMC5814748.

AKSmooth 1.0 – Ajusted Local Kernel Smoothing for Bisulfite Sequencing data

AKSmooth 1.0

:: DESCRIPTION

AKSmooth is a statistical method that can accurately and efficiently reconstruct the single CpG methylation estimate across the entire methylome using low-coverage bisulfite sequencing (Bi-Seq) data.

::DEVELOPER

AKSmooth team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  •  Linux
  • R

:: DOWNLOAD

 AKSmooth

:: MORE INFORMATION

Citation

J Bioinform Comput Biol. 2014 Dec;12(6):1442005. doi: 10.1142/S0219720014420050.
AKSmooth: enhancing low-coverage bisulfite sequencing data via kernel-based smoothing.
Chen J1, Lutsik P, Akulenko R, Walter J, Helms V.

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