Changes between Version 21 and Version 22 of SatelliteSeqAnalysis

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Timestamp:
2009/03/20 17:10:35 (15 years ago)
Author:
bonnalraoul
Comment:

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  • SatelliteSeqAnalysis

    v21 v22  
    2121[http://compbio.cs.toronto.edu/shrimp/ SHRiMP] supports letter-space (454/Solexa), color-space (Solid) and Helicos 2-pass space. Spaced-seeds followed by S-W. [[BR]] 
    2222[http://bx.psu.edu/miller_lab/dist/README.lastz-1.01.50/README.lastz-1.01.50.html Lastz] Blast(z) variant. Has parameter settings tuned for 454 and Solexa mapping for both reference based assembly and variant discovery. [[BR]] 
    23 EMBOSS 
     23EMBOSS [[BR]] 
     24many mores.... but never used. 
    2425 
    2526== Assemble tools == 
     
    3334    * Data outputs: fna.file (sequence of contigs, FASTA format), qual.file (corresponding Phred equivalent quality score), ace.file (alignment of the reads to contig sequence) 
    3435[[BR]] 
     36[http://www.dnastar.com/ Lasergene] Support 454/Solexa. GUI interface for displaying alignments and contigs organization (scaffolds) [[BR]] 
    3537Velvet[[BR]] 
    36 EMBOSS 
     38EMBOSS [[BR]] 
     39many mores.... but never used. 
    3740 
    3841== Platforms ==