Banana Slug Genomics

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====== Assemblies ======

=====2015=====
====Nuclear====
| Contributing team | Contig N50 | Scaffold N50 | Total bases | Location | 
|[[contributors:team_2_page|SOAP: Team 2 page]]| 8,033 | 11,000 | 2,293,889,058 |  http://genome-test.cse.ucsc.edu/~charles/BME235_backup/Assemblies/2015/SOAPdenovo2/SOAPdenovo2_run3_all/soapdenovo2_allAssembly_1.scafSeq.gapclosed |
|[[contributors:team_4_page| ABySS: Team 4 page]]| 2,669 | 3,063 | 2,446,362,204| http://genome-test.cse.ucsc.edu/~charles/BME235_backup/Assemblies/2015/abyss/slug-scaffolds.fa |
|[[contributors:team_5_page| Discovar de novo: Team 5 page]]| 10,427 | 12,549 | 2,395,797,282 | http://genome-test.cse.ucsc.edu/~charles/BME235_backup/Assemblies/2015/DiscovarDeNovo/KolossusAssembly/discovarDeNovoKolossusAssembly.fasta |
====Mitochondrion====
[[natasha@dudek.org |Natasha Dudek]] (Discovar //de novo//) re-assembled the [[assemblies::2015::mitochondrion_assembly | mitochondrion]] in 2015.

| Contributing team | Contig N50 | Scaffold N50 | Total bases | Location |
| [[contributors:team_5_page| Discovar de novo: Team 5 page]] | 9,030 | 9,030 | 15,548 | http://genome-test.cse.ucsc.edu/~charles/BME235_backup/Data/2015/mitochondrion/mitochondrion_SW018-9_discovar.fasta | 


[[assemblies::2015::mitochondrion_assembly | The 2015 mitochondrion assembly page]]

====Repetitive Elements====
| Contributing team | Contig N50 | Scaffold N50 | Total bases | Location |
|Charles Cole|29|29|19,510,691|campusrocks.ucsc.edu:/campusdata/BME235/S15_assemblies/RepArk/Banana_Slug_Repetitive_elements_without_UCSF/velvet_repeat_lib/contigs.fa|
[[assemblies::2015::repetitive_elements|2015 repetitive Elements page]]
=====2011=====
====Mitochondrion====
[[https://users.soe.ucsc.edu/~karplus/| Kevin Karplus]] attempted a [[assemblies::2011::mitochondrion_assembly |mitochondrion assembly]] in 2012 using the data he had previously gathered. 

| Contributing team | Contig N50 | Scaffold N50 | Total bases | Location |
| [[https://users.soe.ucsc.edu/~karplus/| Kevin Karplus]] |  |  |  | {{:computer_resources:assemblies:mitochondrion-draft2.fasta.gz|}} | 

[[assemblies::2011::mitochondrion_assembly | The 2012 mitochondrion assembly page ]] 

=====2010=====
Banana Slug Genomics

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