It is envisaged that every 4-6 months the contigs will be updated with newly acquired sequences. There are 2 ways to do this -- do a complete whole new assembly or take the previous assembly and slot the new sequences into that. The latter approach has 2 advantages -- the nomenclature of the contigs remains the same from one assembly to the next, and it should require less computing power than a complete new assembly.
Status:
Assembly #3, 12 Dec 2002 Date: Mon, 10 Feb 2003 11:58:25 -0500 From: "Travis Banks" <tbanks@agr.gc.ca> number of ESTs - 409765 number of contigs - 39813 number of singletons - 50116 number of contigs with depth 8 or more - 9346 number of contigs with depth 20 or more - 3336 This build was done using uicluster2 to precluster and CAP3 to assemble. =========== Assembly #2, 28 Oct 2002 Date: Mon, 28 Oct 2002 14:43:10 -0500 From: "Travis Banks" <tbanks@agr.gc.ca> number of ESTs - 198695 number of contigs - 22135 number of singletons - 28225 number of contigs with depth 8 or more - 5604 This build was done at 90% identity and 40 basepair overlap. =========== Assembly #1, 21 Jun 2002 Date: Fri, 21 Jun 2002 17:12:27 -0400 From: "Daryl Somers" <SomersD@agr.gc.ca> Subject: Wheat EST assembly is done !! number of ESTs - 186257 number of contigs - 23395 number of singletons - 26489 number of contigs with depth 7 or more - 5343 The assembly was done using Paracel software - clustering with PCP version 2.2.5, assembly with CAP4 2.2.5. All parameters for clustering and assembly where default values except for cap4 which had an overlap length of 40 and a percent identity of 95%.
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