:: DESCRIPTION
GGD-Lasso (Graph-regularized Dual Lasso) is a robust approach for eQTL mapping.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2014 Jun 15;30(12):i139-i148. doi: 10.1093/bioinformatics/btu293.
Graph-regularized dual Lasso for robust eQTL mapping.
Cheng W, Zhang X, Guo Z, Shi Y, Wang W.
:: DESCRIPTION
HAPAL is an R code for mapping HAPlotype-haplotype interactions with Adaptive Lasso
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
BMC Genet. 2010 Aug 27;11:79. doi: 10.1186/1471-2156-11-79.
Mapping haplotype-haplotype interactions with adaptive LASSO.
Li M, Romero R, Fu WJ, Cui Y.
:: DESCRIPTION
The R package msgl (multinomial sparse group lasso) fits multinomial models for e.g. multiclass classification with a sparse group lasso penalty.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2014 May 15;30(10):1417-23. doi: 10.1093/bioinformatics/btu044. Epub 2014 Jan 24.
Modeling tissue contamination to improve molecular identification of the primary tumor site of metastases.
Vincent M1, Perell K, Nielsen FC, Daugaard G, Hansen NR.
:: DESCRIPTION
IsoLasso is an algorithm to assemble transcripts and estimate their expression levels from RNA-Seq reads.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
J Comput Biol. 2011 Nov;18(11):1693-707. doi: 10.1089/cmb.2011.0171. Epub 2011 Sep 27. IsoLasso: a LASSO regression approach to RNA-Seq based transcriptome assembly. Li W1, Feng J, Jiang T.
:: DESCRIPTION
FlipFlop is a fast method for de novo transcript discovery and abundance estimation from RNA-Seq data.
::DEVELOPER
Centre for Computational Biology
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2014 May 9.
Efficient RNA Isoform Identification and Quantification from RNA-Seq Data with Network Flows.
Bernard E, Jacob L, Mairal J, Vert JP.
:: DESCRIPTION
Piet provides some segmentation tools, using fused lasso, group fused lasso and generalized fused lasso (GFL), for analysis of individual or multiple sequences of CNV data.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Z. Zhang, K. Lange, C. Sabatti (2012)
Reconstructing DNA copy number by joint segmentation of multiple sequences
:: DESCRIPTION
LMM-Lasso is a linear mixed models that allows for both multi-locus mapping and correction for confounding effects.
::DEVELOPER
Machine Learning and Computational Biology Research Group
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2013 Jan 15;29(2):206-14. doi: 10.1093/bioinformatics/bts669.
A Lasso multi-marker mixed model for association mapping with population structure correction.
Rakitsch B, Lippert C, Stegle O, Borgwardt K.
:: DESCRIPTION
CCLasso is a novel method based on least squares with ℓ1 penalty to infer the correlation network for latent variables of compositional data from metagenomic data
::DEVELOPER
Fang Huaying (hyfang@pku.edu.cn) , Minghua Deng
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
CCLasso: Correlation Inference for Compositional Data through Lasso.
Fang H, Huang C, Zhao H, Deng M.
Bioinformatics. 2015 Jun 4. pii: btv349.
:: DESCRIPTION
lol contains various optimization methods for matrix-to-matrix Lasso inference, such as cross-validation, randomised lasso, subsampling lasso etc. It is specifically designed for multicollinear predictor variables.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
A sparse regulatory network of copy-number driven gene expression reveals putative breast cancer oncogenes
Y. Yuan, C. Curtis, C. Caldas, F. Markowetz
IEEE/ACM Trans Comput Biol Bioinform. 2011 Jul 20
