Insyght, a conserved synteny - homolog browser

02/09/2016

02:19 PM Amélioration #5833 (Closed): Automatic and anonymous bug reporting tool

Thomas Lacroix

11:16 AM Feature #5832 (Closed): PIPELINE: insertion of taxonomic data relevant to the dataset at hand only to save disk space.

Thomas Lacroix

11:15 AM Feature #5831 (Closed): PIPELINE: support of .gbk files generated by prokka.

Thomas Lacroix

11:15 AM Feature #5830 (Closed): PIPELINE: blast "organism vs all" instead of "element vs element" to be able to handle draft genomes with many contigs.

Thomas Lacroix

11:15 AM Feature #5829 (Closed): PIPELINE: script to automatically correct elements types and group them into organisms.

Thomas Lacroix

11:14 AM Feature #5828 (Closed): PIPELINE: option to recover from failure (computer shutdown, ...) without starting over for resources-consuming steps (blast and find synteny).

Thomas Lacroix

11:14 AM Feature #5827 (Closed): PIPELINE: overall performance tuning : 2.5X faster (no bidirectional blasts, parralel insertion into the database), less intermediate files generated

Thomas Lacroix

11:12 AM Feature #5826 (Closed): PIPELINE: options to use an external cluster for resources-consuming steps (blast and find synteny)

Thomas Lacroix

10:33 AM Feature #5824 (Closed): WEB APP: support of draft genomes with many contigs ; some queries regarding those genomes are still taking too much time though

Thomas Lacroix

10:33 AM Feature #5823 (Closed): WEB APP: support of multiple organisms with identical taxo_id

Thomas Lacroix

10:32 AM Feature #5822 (Closed): WEB APP: Select reference : functionality to have a direct access to the core / dispensable gene set for reference node

Thomas Lacroix

10:32 AM Feature #5821 (Closed): WEB APP: taxonomic browser: automatic selection of the deeper node before branching

Thomas Lacroix

10:31 AM Feature #5820 (Closed): WEB APP: export sequences of genes within a genomic region

Thomas Lacroix

10:30 AM Bug #5819 (Closed): WEB APP: some special characters were not displaying correctly on some web browser, changed to more widely supported characters

Thomas Lacroix

10:30 AM Feature #5818 (Closed): WEB APP: singleton synteny display the gene homology directly instead of a synteny of 1 to expand

Thomas Lacroix

10:29 AM Feature #5817 (Closed): WEB APP: SELECT REFERENCE -> build your reference gene set among available molecules : new filter on protein lenght

Thomas Lacroix

10:29 AM Feature #5816 (Closed): WEB APP: more distingasble colors for synteny ; ortholog not in synteny colored in grey to make the synyeny stand out more.

Thomas Lacroix

10:28 AM Feature #5815 (Closed): WEB APP: export the ortholog table in .csv format ; simple output counting the number of orthologs per cell

Thomas Lacroix

10:27 AM Feature #5814 (Closed): WEB APP: locus tag and functional annotation links to EnsemblGenomes, GOA, Interpro, Unipro, KEGG, PFAM, NCBI, blast2seq alignment viewer

Thomas Lacroix

10:24 AM Feature #5813 (Closed): WEB APP: migrate to GWT 2.7 and GSS

Thomas Lacroix

02/05/2016

02:58 PM Insyght “In the cloud” - IFB VM "Bacterial genomics" v1.7

A virtual machine (VM) allows for private analysis. Users can customize which genomes to compare, the blast parameter... Thomas Lacroix

02:23 PM Revision 12: Feb 5th 2016, release 326

01:58 PM Revision 11: Feb 5th 2016, pre-release 326 - delete all files

01/27/2016

02:39 PM Document: Guide Insyght “In the cloud” - IFB VM "Bacterial genomics"

This guide describes the steps on how to run and use your version of Insyght “In the cloud” with the IFB appliance “B... Thomas Lacroix

01/14/2016

04:09 PM Retour utilisateur #3126 (Rejected): load testing

not a priority anymore Thomas Lacroix

04:08 PM Support #3140 (Rejected): fiche plume

The project Plume has been halted Thomas Lacroix

04:07 PM Retour utilisateur #3213 (Closed): rename whole organism to reference organism in the sort result by options

Thomas Lacroix

04:06 PM Bug #3788 (Closed): transfert gene set from genomic orga to ortho table : some genes are missing sometime ?

Thomas Lacroix

04:05 PM Bug #3788 (Resolved): transfert gene set from genomic orga to ortho table : some genes are missing sometime ?

Thomas Lacroix