Here is the list of available command line software.
Categories
All
Expression analysis
- Librairies and other tools
- SNP and structural variations
- Repeats
- Proteins
- Phylogeny / Metagenomic
- Sequences cleaning
- Pattern
- Genetic map
- Assembly
- ncRNA
- Annotation
- Sequences alignment
- Genomic association studies
- Mathematic
- Population genetics
- ChIP-Seq analysis
- RAD-Seq analysis
Nucleic acid folding
20.02.2012
PLINK is a free, open-source whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner.
http://pngu.mgh.harvard.edu/~purcell/plink/index.shtml
PLINK
PLINK is a free, open-source whole genome association analysis toolset, designed to perform a range of basic, large-scale analyses in a computationally efficient manner.
http://pngu.mgh.harvard.edu/~purcell/plink/index.shtml
Category: Genomic association studies
17.02.2012
Trait Analysis by aSSociation, Evolution and Linkage. TASSEL has multiple functions, including association study, evaluating evolutionary relationships, analysis of linkage disequilibrium, principal component analysis, cluster analysis, missing data imputation and data visualization for large sets of data.
http://www.maizegenetics.net/index.php?option=com_content&task=view&id=89&Itemid=119
TASSEL
Trait Analysis by aSSociation, Evolution and Linkage. TASSEL has multiple functions, including association study, evaluating evolutionary relationships, analysis of linkage disequilibrium, principal component analysis, cluster analysis, missing data imputation and data visualization for large sets of data.
http://www.maizegenetics.net/index.php?option=com_content&task=view&id=89&Itemid=119
Category: Genomic association studies