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Last updated on: 2021-12-01 02:16 [UTC]

Metadata for staden in main

gap5.desktop - 2.0.0+b11-4+b1 ⚙ amd64 ⚙ arm64 ⚙ armhf ⚙ i386 ⚙ mips64el ⚙ ppc64el ⚙ s390x

Icon
---
Type: desktop-application
ID: gap5.desktop
Package: staden
Name:
  C: gap5
Summary:
  C: Staden gap5 assembly editor
Description:
  C: >-
    <p>Staden is a fully developed set of DNA sequence assembly (Gap4 and Gap5), editing and analysis tools (Spin).</p>

    <p>Gap4 performs sequence assembly, contig ordering based on read pair data, contig joining based on sequence comparisons,
    assembly checking, repeat searching, experiment suggestion, read pair analysis and contig editing. It has graphical views
    of contigs, templates, readings and traces which all scroll in register. Contig editor searches and experiment suggestion
    routines use confidence values to calculate the confidence of the consensus sequence and hence identify only places requiring
    visual trace inspection or extra data. The result is extremely rapid finishing and a consensus of known accuracy.</p>

    <p>Pregap4 provides a graphical user interface to set up the processing required to prepare trace data for assembly or
    analysis, and automates these processes.</p>

    <p>Trev is a rapid and flexible viewer and editor for ABI, ALF, SCF and ZTR trace files.</p>

    <p>Prefinish analyses partially completed sequence assemblies and suggests the most efficient set of experiments to help
    finish the project.</p>

    <p>Tracediff and hetscan automatically locate mutations by comparing trace data against reference traces. They annotate
    the mutations found ready for viewing in gap4.</p>

    <p>Spin analyses nucleotide sequences to find genes, restriction sites, motifs, etc. It can perform translations, find
    open reading frames, count codons, etc. Many results are presented graphically and a sliding sequence window is linked
    to the graphics cursor. Spin also compares pairs of sequences in many ways. It has very rapid dot matrix analysis, global
    and local alignment algorithms, plus a sliding sequence window linked to the graphical plots. It can compare nucleic acid
    against nucleic acid, protein against protein, and protein against nucleic acid.</p>
  en: >-
    <p>Staden is a fully developed set of DNA sequence assembly (Gap4 and Gap5), editing and analysis tools (Spin).</p>

    <p>Gap4 performs sequence assembly, contig ordering based on read pair data, contig joining based on sequence comparisons,
    assembly checking, repeat searching, experiment suggestion, read pair analysis and contig editing. It has graphical views
    of contigs, templates, readings and traces which all scroll in register. Contig editor searches and experiment suggestion
    routines use confidence values to calculate the confidence of the consensus sequence and hence identify only places requiring
    visual trace inspection or extra data. The result is extremely rapid finishing and a consensus of known accuracy.</p>

    <p>Pregap4 provides a graphical user interface to set up the processing required to prepare trace data for assembly or
    analysis, and automates these processes.</p>

    <p>Trev is a rapid and flexible viewer and editor for ABI, ALF, SCF and ZTR trace files.</p>

    <p>Prefinish analyses partially completed sequence assemblies and suggests the most efficient set of experiments to help
    finish the project.</p>

    <p>Tracediff and hetscan automatically locate mutations by comparing trace data against reference traces. They annotate
    the mutations found ready for viewing in gap4.</p>

    <p>Spin analyses nucleotide sequences to find genes, restriction sites, motifs, etc. It can perform translations, find
    open reading frames, count codons, etc. Many results are presented graphically and a sliding sequence window is linked
    to the graphics cursor. Spin also compares pairs of sequences in many ways. It has very rapid dot matrix analysis, global
    and local alignment algorithms, plus a sliding sequence window linked to the graphical plots. It can compare nucleic acid
    against nucleic acid, protein against protein, and protein against nucleic acid.</p>
Categories:
- Biology
- Science
Icon:
  cached:
  - name: staden_icon4bl.png
    width: 64
    height: 64
Launchable:
  desktop-id:
  - gap5.desktop

pregap4.desktop - 2.0.0+b11-4+b1 ⚙ amd64 ⚙ arm64 ⚙ armhf ⚙ i386 ⚙ mips64el ⚙ ppc64el ⚙ s390x

Icon
---
Type: desktop-application
ID: pregap4.desktop
Package: staden
Name:
  C: pregap4
Summary:
  C: Staden pregap4 DNA preprocessor
Description:
  C: >-
    <p>Staden is a fully developed set of DNA sequence assembly (Gap4 and Gap5), editing and analysis tools (Spin).</p>

    <p>Gap4 performs sequence assembly, contig ordering based on read pair data, contig joining based on sequence comparisons,
    assembly checking, repeat searching, experiment suggestion, read pair analysis and contig editing. It has graphical views
    of contigs, templates, readings and traces which all scroll in register. Contig editor searches and experiment suggestion
    routines use confidence values to calculate the confidence of the consensus sequence and hence identify only places requiring
    visual trace inspection or extra data. The result is extremely rapid finishing and a consensus of known accuracy.</p>

    <p>Pregap4 provides a graphical user interface to set up the processing required to prepare trace data for assembly or
    analysis, and automates these processes.</p>

    <p>Trev is a rapid and flexible viewer and editor for ABI, ALF, SCF and ZTR trace files.</p>

    <p>Prefinish analyses partially completed sequence assemblies and suggests the most efficient set of experiments to help
    finish the project.</p>

    <p>Tracediff and hetscan automatically locate mutations by comparing trace data against reference traces. They annotate
    the mutations found ready for viewing in gap4.</p>

    <p>Spin analyses nucleotide sequences to find genes, restriction sites, motifs, etc. It can perform translations, find
    open reading frames, count codons, etc. Many results are presented graphically and a sliding sequence window is linked
    to the graphics cursor. Spin also compares pairs of sequences in many ways. It has very rapid dot matrix analysis, global
    and local alignment algorithms, plus a sliding sequence window linked to the graphical plots. It can compare nucleic acid
    against nucleic acid, protein against protein, and protein against nucleic acid.</p>
  en: >-
    <p>Staden is a fully developed set of DNA sequence assembly (Gap4 and Gap5), editing and analysis tools (Spin).</p>

    <p>Gap4 performs sequence assembly, contig ordering based on read pair data, contig joining based on sequence comparisons,
    assembly checking, repeat searching, experiment suggestion, read pair analysis and contig editing. It has graphical views
    of contigs, templates, readings and traces which all scroll in register. Contig editor searches and experiment suggestion
    routines use confidence values to calculate the confidence of the consensus sequence and hence identify only places requiring
    visual trace inspection or extra data. The result is extremely rapid finishing and a consensus of known accuracy.</p>

    <p>Pregap4 provides a graphical user interface to set up the processing required to prepare trace data for assembly or
    analysis, and automates these processes.</p>

    <p>Trev is a rapid and flexible viewer and editor for ABI, ALF, SCF and ZTR trace files.</p>

    <p>Prefinish analyses partially completed sequence assemblies and suggests the most efficient set of experiments to help
    finish the project.</p>

    <p>Tracediff and hetscan automatically locate mutations by comparing trace data against reference traces. They annotate
    the mutations found ready for viewing in gap4.</p>

    <p>Spin analyses nucleotide sequences to find genes, restriction sites, motifs, etc. It can perform translations, find
    open reading frames, count codons, etc. Many results are presented graphically and a sliding sequence window is linked
    to the graphics cursor. Spin also compares pairs of sequences in many ways. It has very rapid dot matrix analysis, global
    and local alignment algorithms, plus a sliding sequence window linked to the graphical plots. It can compare nucleic acid
    against nucleic acid, protein against protein, and protein against nucleic acid.</p>
Categories:
- Biology
- Science
Icon:
  cached:
  - name: staden_icon4bl.png
    width: 64
    height: 64
Launchable:
  desktop-id:
  - pregap4.desktop

gap4.desktop - 2.0.0+b11-4+b1 ⚙ amd64 ⚙ arm64 ⚙ armhf ⚙ i386 ⚙ mips64el ⚙ ppc64el ⚙ s390x

Icon
---
Type: desktop-application
ID: gap4.desktop
Package: staden
Name:
  C: gap4
Summary:
  C: Staden gap4 assembly editor
Description:
  C: >-
    <p>Staden is a fully developed set of DNA sequence assembly (Gap4 and Gap5), editing and analysis tools (Spin).</p>

    <p>Gap4 performs sequence assembly, contig ordering based on read pair data, contig joining based on sequence comparisons,
    assembly checking, repeat searching, experiment suggestion, read pair analysis and contig editing. It has graphical views
    of contigs, templates, readings and traces which all scroll in register. Contig editor searches and experiment suggestion
    routines use confidence values to calculate the confidence of the consensus sequence and hence identify only places requiring
    visual trace inspection or extra data. The result is extremely rapid finishing and a consensus of known accuracy.</p>

    <p>Pregap4 provides a graphical user interface to set up the processing required to prepare trace data for assembly or
    analysis, and automates these processes.</p>

    <p>Trev is a rapid and flexible viewer and editor for ABI, ALF, SCF and ZTR trace files.</p>

    <p>Prefinish analyses partially completed sequence assemblies and suggests the most efficient set of experiments to help
    finish the project.</p>

    <p>Tracediff and hetscan automatically locate mutations by comparing trace data against reference traces. They annotate
    the mutations found ready for viewing in gap4.</p>

    <p>Spin analyses nucleotide sequences to find genes, restriction sites, motifs, etc. It can perform translations, find
    open reading frames, count codons, etc. Many results are presented graphically and a sliding sequence window is linked
    to the graphics cursor. Spin also compares pairs of sequences in many ways. It has very rapid dot matrix analysis, global
    and local alignment algorithms, plus a sliding sequence window linked to the graphical plots. It can compare nucleic acid
    against nucleic acid, protein against protein, and protein against nucleic acid.</p>
  en: >-
    <p>Staden is a fully developed set of DNA sequence assembly (Gap4 and Gap5), editing and analysis tools (Spin).</p>

    <p>Gap4 performs sequence assembly, contig ordering based on read pair data, contig joining based on sequence comparisons,
    assembly checking, repeat searching, experiment suggestion, read pair analysis and contig editing. It has graphical views
    of contigs, templates, readings and traces which all scroll in register. Contig editor searches and experiment suggestion
    routines use confidence values to calculate the confidence of the consensus sequence and hence identify only places requiring
    visual trace inspection or extra data. The result is extremely rapid finishing and a consensus of known accuracy.</p>

    <p>Pregap4 provides a graphical user interface to set up the processing required to prepare trace data for assembly or
    analysis, and automates these processes.</p>

    <p>Trev is a rapid and flexible viewer and editor for ABI, ALF, SCF and ZTR trace files.</p>

    <p>Prefinish analyses partially completed sequence assemblies and suggests the most efficient set of experiments to help
    finish the project.</p>

    <p>Tracediff and hetscan automatically locate mutations by comparing trace data against reference traces. They annotate
    the mutations found ready for viewing in gap4.</p>

    <p>Spin analyses nucleotide sequences to find genes, restriction sites, motifs, etc. It can perform translations, find
    open reading frames, count codons, etc. Many results are presented graphically and a sliding sequence window is linked
    to the graphics cursor. Spin also compares pairs of sequences in many ways. It has very rapid dot matrix analysis, global
    and local alignment algorithms, plus a sliding sequence window linked to the graphical plots. It can compare nucleic acid
    against nucleic acid, protein against protein, and protein against nucleic acid.</p>
Categories:
- Biology
- Science
Icon:
  cached:
  - name: staden_icon4bl.png
    width: 64
    height: 64
Launchable:
  desktop-id:
  - gap4.desktop

trev.desktop - 2.0.0+b11-4+b1 ⚙ amd64 ⚙ arm64 ⚙ armhf ⚙ i386 ⚙ mips64el ⚙ ppc64el ⚙ s390x

Icon
---
Type: desktop-application
ID: trev.desktop
Package: staden
Name:
  C: trev
Summary:
  C: Staden trev program
Description:
  C: >-
    <p>Staden is a fully developed set of DNA sequence assembly (Gap4 and Gap5), editing and analysis tools (Spin).</p>

    <p>Gap4 performs sequence assembly, contig ordering based on read pair data, contig joining based on sequence comparisons,
    assembly checking, repeat searching, experiment suggestion, read pair analysis and contig editing. It has graphical views
    of contigs, templates, readings and traces which all scroll in register. Contig editor searches and experiment suggestion
    routines use confidence values to calculate the confidence of the consensus sequence and hence identify only places requiring
    visual trace inspection or extra data. The result is extremely rapid finishing and a consensus of known accuracy.</p>

    <p>Pregap4 provides a graphical user interface to set up the processing required to prepare trace data for assembly or
    analysis, and automates these processes.</p>

    <p>Trev is a rapid and flexible viewer and editor for ABI, ALF, SCF and ZTR trace files.</p>

    <p>Prefinish analyses partially completed sequence assemblies and suggests the most efficient set of experiments to help
    finish the project.</p>

    <p>Tracediff and hetscan automatically locate mutations by comparing trace data against reference traces. They annotate
    the mutations found ready for viewing in gap4.</p>

    <p>Spin analyses nucleotide sequences to find genes, restriction sites, motifs, etc. It can perform translations, find
    open reading frames, count codons, etc. Many results are presented graphically and a sliding sequence window is linked
    to the graphics cursor. Spin also compares pairs of sequences in many ways. It has very rapid dot matrix analysis, global
    and local alignment algorithms, plus a sliding sequence window linked to the graphical plots. It can compare nucleic acid
    against nucleic acid, protein against protein, and protein against nucleic acid.</p>
  en: >-
    <p>Staden is a fully developed set of DNA sequence assembly (Gap4 and Gap5), editing and analysis tools (Spin).</p>

    <p>Gap4 performs sequence assembly, contig ordering based on read pair data, contig joining based on sequence comparisons,
    assembly checking, repeat searching, experiment suggestion, read pair analysis and contig editing. It has graphical views
    of contigs, templates, readings and traces which all scroll in register. Contig editor searches and experiment suggestion
    routines use confidence values to calculate the confidence of the consensus sequence and hence identify only places requiring
    visual trace inspection or extra data. The result is extremely rapid finishing and a consensus of known accuracy.</p>

    <p>Pregap4 provides a graphical user interface to set up the processing required to prepare trace data for assembly or
    analysis, and automates these processes.</p>

    <p>Trev is a rapid and flexible viewer and editor for ABI, ALF, SCF and ZTR trace files.</p>

    <p>Prefinish analyses partially completed sequence assemblies and suggests the most efficient set of experiments to help
    finish the project.</p>

    <p>Tracediff and hetscan automatically locate mutations by comparing trace data against reference traces. They annotate
    the mutations found ready for viewing in gap4.</p>

    <p>Spin analyses nucleotide sequences to find genes, restriction sites, motifs, etc. It can perform translations, find
    open reading frames, count codons, etc. Many results are presented graphically and a sliding sequence window is linked
    to the graphics cursor. Spin also compares pairs of sequences in many ways. It has very rapid dot matrix analysis, global
    and local alignment algorithms, plus a sliding sequence window linked to the graphical plots. It can compare nucleic acid
    against nucleic acid, protein against protein, and protein against nucleic acid.</p>
Categories:
- Biology
- Science
Icon:
  cached:
  - name: staden_icon4bl.png
    width: 64
    height: 64
Launchable:
  desktop-id:
  - trev.desktop