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1 Genome Sequence
2 ACEDB (genomic database system) Ace.mbly (graphic interactive program to support shotgun and directed sequencing projects) ARTEMIS II (non-clinical product safety assessment) Bass (lane tracking and base calling on UNIX) Bioccelerator (hardware search accelerator for GenCore range) BioXL (hardware search accelerator for GenCore range) BLAST (fast sequence similarity database search tools) BMERC Library (Biomolecular Engineering Research Center Library) CITI2/BISANCE (genetics and imaging software library) Compugen ParSeq (software-only accelerator for GenCore range) Consed (sequence assembly editor for use with PHRAP) CRI-MAP (construction of multi-locus linkage maps) CRI-MAP /PVM (parallelized version of CRI-MAP) Cross_Match (generalpurpose utility for comparing two sets of DNA sequences) EMBL Suite (suite of genetic sequencing applications) FastA (sequence similarity database search tool) FASTLINK (linkage analysis - faster version of LINKAGE) GenCore (high throughput sequence analysis package) Gene Hunter (complete multi-point linkage analysis, including halotyping) GeneQuiz (large scale sequence analysis) GeneWorld (automated database search tool) GRAIL (AI system for gene recognition and interpretation) GRM (Genome Reconstruction Manager - semi-automatic reconstruction of DNA sequences from sequence data and directed or constraint data) GSDB Annotator (GUI browser/editor for the Genome Sequence Database) LifeSeq (database of gene sequence and expression information for 1.3 million human gene fragments) LINKAGE (package for calculation of recombination rates, lod score tables and genetic risks) MAPMAKER (constructs genetic maps) MASE (Multiple Alignment Sequence Editor) MBCRR Package (DNA and protein sequencing and structural analysis) Multisearch V (parallel sequence databses searching) OMIGA (full-featured sequence analysis software) OSP (tool for choosing PCR and DNA sequencing primers) Paup 4.0 (phylogenetic analysis - molecular evolution) Phrap (fragment assembly program) Phred (base-calling software with quality information) PHYLIP (phylogenetic analysis - molecular evolution) PIMA.SH (Pattern-Induced Multiple-sequence Alignment program) PLsearch (protein homology family pattern library and search tool) Primer3 (picks priners for PCR reactions) QUICKMAP (database and navigation tool for integration of CEPH-G_n_thon data) RHMapper (optimization tool for radiation hybrid maps) Sigma (genetic mapping workbench) SPS Cross_Match (parallel version of Cross_Match) SPS Phrap (parallel version of Phrap) SPS SWAT (parallel version) Staden Package (sequence assembly and editing program) STS-Pipeline (removes vector sequences and identifies duplicates) SWAT (sequence alignment tool) Vitesse (calculates likelihood on pedigrees) Wisconsin Package (comprehensive genetic sequencing tools) ACEDB (genomic database system) Ace.mbly (graphic interactive program to support shotgun and directed sequencing projects) ARTEMIS II (non-clinical product safety assessment) Bass (lane tracking and base calling on UNIX) Bioccelerator (hardware search accelerator for GenCore range) BioXL (hardware search accelerator for GenCore range) BLAST (fast sequence similarity database search tools) BMERC Library (Biomolecular Engineering Research Center Library) CITI2/BISANCE (genetics and imaging software library) Compugen ParSeq (software-only accelerator for GenCore range) Consed (sequence assembly editor for use with PHRAP) CRI-MAP (construction of multi-locus linkage maps) CRI-MAP /PVM (parallelized version of CRI-MAP) Cross_Match (general-purpose utility for comparing two sets of DNA sequences) EMBL Suite (suite of genetic sequencing applications) FastA (sequence similarity database search tool) FASTLINK (linkage analysis - faster version of LINKAGE) GenCore (high throughput sequence analysis package) Gene Hunter (complete multi-point linkage analysis, including halotyping) GeneQuiz (large scale sequence analysis) GeneWorld (automated database search tool) GRAIL (AI system for gene recognition and interpretation) GRM (Genome Reconstruction Manager - semi-automatic reconstruction of DNA sequences from sequence data and directed or constraint data) GSDB Annotator (GUI browser/editor for the Genome Sequence Database) LifeSeq (database of gene sequence and expression information for 1.3 million human gene fragments) LINKAGE (package for calculation of recombination rates, lod score tables and genetic risks) MAPMAKER (constructs genetic maps) MASE (Multiple Alignment Sequence Editor) MBCRR Package (DNA and protein sequencing and structural analysis) Multisearch V (parallel sequence databses searching) OMIGA (full-featured sequence analysis software) OSP (tool for choosing PCR and DNA sequencing primers) Paup 4.0 (phylogenetic analysis - molecular evolution) Phrap (fragment assembly program) Phred (base-calling software with quality information) PHYLIP (phylogenetic analysis - molecular evolution)
3 PIMA.SH (Pattern-Induced Multiple-sequence Alignment program) PLsearch (protein homology family pattern library and search tool) Primer3 (picks priners for PCR reactions) QUICKMAP (database and navigation tool for integration of CEPH-G_n_thon data) RHMapper (optimization tool for radiation hybrid maps) Sigma (genetic mapping workbench) SPS Cross_Match (parallel version of Cross_Match) SPS Phrap (parallel version of Phrap) SPS SWAT (parallel version) Staden Package (sequence assembly and editing program) STS-Pipeline (removes vector sequences and identifies duplicates) SWAT (sequence alignment tool) Vitesse (calculates likelihood on pedigrees) Wisconsin Package (comprehensive genetic sequencing tools) ACEDB (genomic database system) Ace.mbly (graphic interactive program to support shotgun and directed sequencing projects) ARTEMIS II (non-clinical product safety assessment) Bass (lane tracking and base calling on UNIX) Bioccelerator (hardware search accelerator for GenCore range) BioXL (hardware search accelerator for GenCore range) BLAST (fast sequence similarity database search tools) BMERC Library (Biomolecular Engineering Research Center Library) CITI2/BISANCE (genetics and imaging software library) Compugen ParSeq (software-only accelerator for GenCore range) Consed (sequence assembly editor for use with PHRAP) CRI-MAP (construction of multi-locus linkage maps) CRI-MAP /PVM (parallelized version of CRI-MAP) Cross_Match (general-purpose utility for comparing two sets of DNA sequences) EMBL Suite (suite of genetic sequencing applications) FastA (sequence similarity database search tool) FASTLINK (linkage analysis - faster version of LINKAGE) GenCore (high throughput sequence analysis package) Gene Hunter (complete multipoint linkage analysis, including halotyping) GeneQuiz (large scale sequence analysis) GeneWorld (automated database search tool) GRAIL (AI system for gene recognition and interpretation) GRM (Genome Reconstruction Manager - semi-automatic reconstruction of DNA sequences from sequence data and directed or constraint data) GSDB Annotator (GUI browser/editor for the Genome Sequence Database) LifeSeq (database of gene sequence and expression information for 1.3 million human gene fragments) LINKAGE (package for calculation of recombination rates, lod score tables and genetic risks) MAPMAKER (constructs genetic maps) MASE (Multiple Alignment Sequence Editor) MBCRR Package (DNA and protein sequencing and structural analysis) Multisearch V (parallel sequence databses searching) OMIGA (full-featured sequence analysis software) OSP (tool for choosing PCR and DNA sequencing primers) Paup 4.0 (phylogenetic analysis - molecular evolution) Phrap (fragment assembly program) Phred (base-calling software with quality information) PHYLIP (phylogenetic analysis - molecular evolution) PIMA.SH (Pattern-Induced Multiple-sequence Alignment program) PLsearch (protein homology family pattern library and search tool) Primer3 (picks priners for PCR reactions) QUICKMAP (database and navigation tool for integration of CEPH-G_n_thon data) RHMapper (optimization tool for radiation hybrid maps) Sigma (genetic mapping workbench) SPS Cross_Match (parallel version of Cross_Match) SPS Phrap (parallel version of Phrap) SPS SWAT (parallel version) Staden Package (sequence assembly and editing program) STS-Pipeline (removes vector sequences and identifies duplicates) SWAT (sequence alignment tool) Vitesse (calculates likelihood on pedigrees) Wisconsin Package (comprehensive genetic sequencing tools) ACEDB (genomic database system) Ace.mbly (graphic interactive program to support shotgun and directed sequencing projects) ARTEMIS II (non-clinical product safety assessment) Bass (lane tracking and base calling on UNIX) Bioccelerator (hardware search accelerator for GenCore range) BioXL (hardware search accelerator for GenCore range) BLAST (fast sequence similarity database search tools) BMERC Library (Biomolecular Engineering Research Center Library) CITI2/BISANCE (genetics and imaging software library) Compugen ParSeq (software-only accelerator for GenCore range) Consed (sequence assembly editor for use with PHRAP) CRI-MAP (construction of multi-locus linkage maps) CRI-MAP /PVM (parallelized version of CRI-MAP) Cross_Match (general-purpose utility for comparing two sets of DNA sequences) EMBL Suite (suite of genetic sequencing applications) FastA (sequence similarity database search tool) FASTLINK (linkage analysis - faster version of LINKAGE) GenCore (high throughput sequence analysis package) Gene Hunter (complete multi-point linkage analysis, including halotyping) GeneQuiz (large scale sequence analysis) GeneWorld (automated database search tool) GRAIL (AI system for gene recognition and interpretation) GRM (Genome Reconstruction Manager - semi-automatic reconstruction of DNA sequences from sequence data and directed or constraint data) GSDB Annotator (GUI browser/editor for the Genome Sequence Database) LifeSeq (database of gene
4 Genome Sequence 0:00 2:24 4:48 7:12 9:36 12:00 14:24 16:48 1CPU 2CPU 4CPU Low is Good
5 Fasta Performance CPUs FRAMESEARCH Performance CPUs Low is Good 4096 wat benchmark AMBER v.5 with MPI EV6 Compiled 1CPU 2CPU 4CPU
6 AlphaServer New AlphaServer AlphaServer ES40 AlphaServer DS20 AlphaStation XP1000 AlphaServer DS10 Alpha/Tru64 UNIX AlphaStation XP900
7 Tru64 UNIX Low is Good Support
8 UNIX Server WAN Router Fire Wall-1 UNIX Server GIGA Switch Switch CPMPAQ PWS600au UNIX Workstation COMPAQ Alpha Server8400/625(2CPU) UNIX Workstation COMPAQ PWS600au JXX
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