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Resources currently defined in BCJ |
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| Suite/Class |
Resource Definitions |
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| Sequence search and alignment |
SimpleBlastall, blastn, blastp, ClustalW, extractSequences |
| HMMER (biosequence analysis using hidden Markov models) |
hmmAlign, hmmBuild, hmmCalibrate, hmmSearch, hmmit, hmmer2sam |
| GROMACS (a molecular dynamics package) |
editconf, genbox, grompp, mdrun, pdb2gmx |
| GLIMMER (a system for finding genes in microbial DNA) |
glimmer |
| GrailEXP (predicts exons, genes, repeats, and CpG islands) |
grailAlign, grailCPG, grailExon, grailGeneAssembly, grailRepeats |
| EMBOSS (The European Molecular Biology Open Software Suite) |
backtranseq, banana, bl2seq, btwisted, cai, chips, codcmp, coderet, compseq, cpgreport, distmat, einverted, equicktandem, fuzznuc, garnier, geecee, iep, marscan, msbar, newcoils, newcpgseek, octanol, palindrome, pepcoil, pepinfo, pepstats, primersearch, profit, prophecy, prophet, recoder, redata, shuffleseq, silent, water |
Feagan et al. Source Code for Biology and Medicine 2007 2:9 doi:10.1186/1751-0473-2-9 |
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