I'm pleased to announce the latest version of the Staden Package, including Gap5, has been uploaded to SourceForge today. For those that are not aware of it, gap5 (and the predecessor gap4) are sequence assembly editing tools. Although gap5 also functions as a reasonable viewer, the primary goal is to produce an editor.
This time there are prebuilt binaries for linux (x86_64 and i686 architectures) in addition to the usual source tarball. However note that these may not necessarily be compatible with all systems due to the huge variation between linux distributions.
Example data is included in the binary distributions within the example_data subdirectory, although it's not a huge short-read assembly for practical reasons.
James
PS. Some example screenshots:
The template display with the Y axis configured to sort by insert size. Clearly visible is a mixture of deep sequencing with short inserts and low coverage sequencing with larger inserts (capillary data in this case).
The contig editor with quality scales displayed in grey and differences between sequence and consensus shown in blue.
This time there are prebuilt binaries for linux (x86_64 and i686 architectures) in addition to the usual source tarball. However note that these may not necessarily be compatible with all systems due to the huge variation between linux distributions.
Example data is included in the binary distributions within the example_data subdirectory, although it's not a huge short-read assembly for practical reasons.
James
PS. Some example screenshots:
The template display with the Y axis configured to sort by insert size. Clearly visible is a mixture of deep sequencing with short inserts and low coverage sequencing with larger inserts (capillary data in this case).
The contig editor with quality scales displayed in grey and differences between sequence and consensus shown in blue.
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