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Balík: ecopcr (0.5.0+dfsg-1)

estimate PCR barcode primers quality

DNA barcoding is a tool for characterizing the species origin using a short sequence from a standard position and agreed upon position in the genome. To be used as a DNA barcode, a genome locus should vary among individuals of the same species only to a minor degree and it should vary among species very quickly. From a practical point of view, a barcode locus should be flanked by two conserved regions to design PCR primers. Several manually discovered barcode loci like COI, rbcL, 18S, 16S and 23S rDNA, or trnH-ps are routinely used today, but no objective function has been described to measure their quality in terms of universality (barcode coverage, Bc ) or in terms of taxonomical discrimination capacity (barcode specificity, Bs ).

ecoPCR is an electronic PCR software developed by LECA and Helix-Project. It helps to estimate Barcode primers quality. In conjunction with OBITools you can postprocess ecoPCR output to compute barcode coverage and barcode specificity. New barcode primers can be developed using the ecoPrimers software

Ostatné balíky súvisiace s balíkom ecopcr

  • závisí
  • odporúča
  • navrhuje
  • dep: libc6 (>= 2.14) [amd64]
    GNU C Library: Shared libraries
    tiež virtuálny balík poskytovaný balíkom libc6-udeb
    dep: libc6 (>= 2.7) [i386]
  • dep: python3
    interactive high-level object-oriented language (default python3 version)
  • dep: python3-reportlab
    ReportLab library to create PDF documents using Python3
  • dep: zlib1g (>= 1:1.1.4)
    compression library - runtime

Stiahnuť ecopcr

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Architektúra Veľkosť balíka Nainštalovaná veľkosť Súbory
amd64 51.6 kB216 kB [zoznam súborov]
i386 53.2 kB212 kB [zoznam súborov]