Package: ecopcr (1.0.1+dfsg-1)

[ Source: ecopcr  ]

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

Other Packages Related to ecopcr

• dep: libc6 (>= 2.17) [arm64]

  GNU C Library: Shared libraries
  also a virtual package provided by libc6-udeb

  dep: libc6 (>= 2.7) [not arm64]

• 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

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Architecture	Package Size	Installed Size	Files
amd64	55.1 kB	230.0 kB	[list of files]
arm64	54.3 kB	226.0 kB	[list of files]
armhf	50.1 kB	178.0 kB	[list of files]
i386	55.4 kB	234.0 kB	[list of files]