| ClusterMine |
Identify sample clusters based on gene expression data |
Knowledge integrated; identify gene sets/functions that may underlie cluster |
R |
PDF |
web |
| iREAD |
intron retention detection from RNA-seq |
only suitable for polyA RNA-seq |
Python/Perl |
PDF |
web |
| GTFtools |
Analyze various modes of gene models in GTF format |
|
python |
PDF |
web |
| MIL |
Multiple instance learning (MIL) algorithms for learning instance label based on instance-level features and bag-level labels. An application in bioinformatics is to predict splice isoform functions based on gene function annotations |
|
python |
|
web |
| libPLS |
a library for building PLS regression and classification models |
Methods on cross validation,outlier detection and feature selection integrated; Model Population Analysis approaches. |
Matlab |
PDF |
web |
| Random Frog |
feature selection/variable selection |
Especially suitable for high dimensional data; Reversible Jump Markov Chain Monte Carlo(RJMCMC)-like |
Matlab |
PDF |
web |
