http://www.csc.fi/english/research/sciences/bioscience/programs
| |
| Programs marked with W can be used with a web browser. General sequence analysis packages
DNA microarray data analysis Sequence assembly - MIRA Whole Genome Shotgun and EST Sequence Assembler
- Velvet assembler for very short reads
- SAMtools utilities for manging SAM/BAM formatted alignmnet files
- CD-HIT Sequence clustering and redundancy removal
-
ClustalW Multiple sequence alignment W - Muscle A fast and accurate multiple sequence alignment program W
- MAFFT Multiple sequece alignment program W
-
Seaview A multiple sequence alignment editor -
JalView A multiple sequence alignment editor Phylogenetics - MrBayes Program for inferring phylogenies using bayesian methods
-
POY Program for inferring phylogenies -
RAxML Fast program for inferring phylogenies with likelihood -
TNT A fast program for inferring phylogenies with parsimony methods - Discovery Studio Molecular modeling package D
-
Maestro Molecular modeling package -
RasMol Molecular graphics visualisation - Rosetta Protein structure prediction and protien docking tool
-
VMD Molecular graphics visualisation -
MERLIN A fast program for nonparametric linkage, and haplotyping -
LINKAGE / FASTLINK Parametric linkage analysis -
GENEHUNTER Multi-point linkage calculations for small pedigrees -
SNPHAP Population-based SNP haplotype reconstruction -
SimWalk2 Haplotyping, and non-parametric analysis -
DHSMAP Fine-mapping of qualitative traits by linkage disequilibrium -
SLINK Power simulation tool for linkage studies based -
PedCheck Detects marker typing incompatibilities in pedigree data -
Mega2 Converts Linkage-format files to other formats -
Pseudomarker Joint linkage and LD analysis Systems biology -
bestim Gene regulatory network inference under the Boolean network model. -
decomptool Decomposition of biochemical networks into subnetworks -
FBAtool A program for flux balance analysis of metabolic networks -
SOSlib Program for running simulations for SBML formatted models. -
Bioperl Bioinformatics tools for perl programming -
Jnet Protein secondary structure prediction program -
Primer PCR primer design -
TMHMM Transmembrane helix prediction tool |
评论