New BLAST interface on CottonGen (8/5/17)

We have upgraded to the Tripal BLAST module.  This new BLAST interface replaces the old BLAST and batch BLAST tools.  The new BLAST  allows for result hyperlinks to the genome scaffolds in JBrowse and links to the feature details in CottonGen and on NCBI.  You can access the new BLAST tool through the "Tools" menu in the header, or use the link on the left hand menu of the Species pages.

ICGI 2017-2019 Officers Elected (7/3/17)

Click to view the email sent from Dr. David Stelly, who is the 2015-2017 ICGI Chair, to the ICGI-mailing list, Mon Jul 3 15:11:45 PDT 2017

[ICGI] ICGI ELECTION RESULTS !!!

 

 

Cotton Cluster File Request

Submitted by Anonymous (not verified) on Wed, 08/02/2017 - 07:56
Name: 
Alberto Boldt
Email Address: 
as.boldt@gmail.com
Email Address: 
as.boldt@gmail.com
Organization: 
Instituto Mato-grossense do Algodão - IMAmt (Mato Grosso Cotton Institute)
Acknowledgement: 
1
Acknowledgement4: 
1

G. arboreum NCGR genome (10,563 contigs and 70,231 scaffolds)

Human-Readable Name G. arboreum NCGR genome (10,563 contigs and 70,231 scaffolds)
Database Path/mainlab/web/temp/db/cottongen/G.arboreum.NCGR.genome
Database Typenucleotide

G. raimondii BGI genome (13 chrom. and 4434 scaffolds)

Human-Readable Name G. raimondii BGI genome (13 chrom. and 4434 scaffolds)
Database Path/mainlab/web/temp/db/cottongen/G.raimondii_BGI-CGP_v1.0_pseudomolecules.fasta
Database Typenucleotide
FASTA Header Formatdefault
External DatabaseG.raimondii.BGI.genome
RegEx/^(\S+).*/
Link-out Typejbrowse

G. raimondii JGI genome (13 chrom. and 1020 scaffolds)

Human-Readable Name G. raimondii JGI genome (13 chrom. and 1020 scaffolds)
Database Path/mainlab/web/temp/db/cottongen/G.raimondii_JGI_221_v2.0.assembly.fasta
Database Typenucleotide
FASTA Header Formatdefault
External DatabaseG.raimondii.JGI.genome
RegEx/^(\S+).*/
Link-out Typejbrowse

G. hirsutum NBI genome (26 chrom. and 288,273 scaffolds)

Human-Readable Name G. hirsutum NBI genome (26 chrom. and 288,273 scaffolds)
Database Path/mainlab/web/temp/db/cottongen/NBI_Gossypium_hirsutum_v1.1.fa
Database Typenucleotide
FASTA Header Formatdefault
External DatabaseG.hirsutum.NBI.genome
RegEx/^(\S+).*/
Link-out Typejbrowse

G. hirsutum BGI genome (26 chrom. and 9128 scaffolds)

Human-Readable Name G. hirsutum BGI genome (26 chrom. and 9128 scaffolds)
Database Path/mainlab/web/temp/db/cottongen/BGI_Gossypium_hirsutum_v1.0_assembly.fasta
Database Typenucleotide
FASTA Header Formatdefault
External DatabaseG.hirsutum.BGI.genome
RegEx/^(\S+).*/
Link-out Typejbrowse