MFSelector - Monotonic Feature Selector

MFSelector - Monotonic Feature Selector
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User's Manuals

MFSelector Tutorial

MFSelector Tutorial (for multicore-based MFSelector)

Package download

MFSelector package in R (Windows / Linux)

MFSelector source code (all platforms )

Parallel processing of MFSelector on machines with multiple cores or CPUs:

MFSelector package in R (only for Linux)

MFSelector source code (only for Linux)

Installaion

For Windows system:
Run R program, type the command ">utils:::menuInstallLocal()", and choose the MFSelector package.

For Linux system:
Step 1. (Optional: if user uses multicore-based MFSelector) Run R program, type the command ">install.packages(pkgs="multicore")"
Step 2. Run R program, type the command ">install.packages(pkgs="MFSelector.tgz", repos = NULL)"

Example Datasets

Example 1: ESC neurogenesis data set (ESCN)
This data set contains 27 samples from 5 periods of human embryonic development: 3 embryonic stem cells (ESC), 3 embryoid bodies (EB), 6 primitive ectoderm cells (PEL), 6 neural tube-like rosette cells, and 9 post-natal neural stem cells (NSC).

Reference: GEO accession number GSE9940 and GSE13307.

Download: ESCN.zip

Example 2: Embryonic Stem Cell Vasculogenesis data set (ESCV)
In this data set, there are 13 samples over four periods of human embryonic stem cell differentiation into human mature (vascular) endothelial cells: 3 undifferentiated embryonic stem cell (ESC) samples, 3 mesodermal progenitor cell (MPC) samples, 4 embryoid body (EB) samples and 3 human mature vascular endothelial cell (VEC) samples.

Reference: GEO accession number GSE19735 and GSE21668

Download: ESCV.zip

Example 3: Synthetic data

These data sets contain 50 samples each spread over five equal sized stages. There is a set with descending trends (denoted 'Des') and a set with ascending trends (denoted 'Asc'). In addition, each data set has 120 genes which are classified into 9 types of monotonic genes (or monotonic-like genes): 'Good (distinct)', 'Good (close)', 'Slightly', 'Outliers (slight)', 'Outliers (severe)', 'Moderately', 'Severely', 'Partially ordered (far)', and 'Partially ordered (close)'. There are 20 genes for each of 'Slightly', 'Moderately', and 'Severely' types and 10 genes for each of 'Good (distinct)', 'Good (close)', 'Outliers (slight)', 'Outliers (severe)', 'Partially ordered (far)', and 'Partially ordered (close)'.

Download: s50_Asc.zip, s50_Des.zip

Additional files:

Additional file 1_Materials S1