Laboratory of Bioinformatics Analyses for Genomics and Metabolism
Dear MicroScope users, As you may have noticed, MicroScope was unavailable on Wednesday March 17th between 11 AM and 1 PM CEST. This was due to an unexpected restart of services on our database server following software updates. All services
The version v3.15.0 of the platform is now deployed. The main novelty in this version is that we now use KEGG Orthology (KO) computed by KOfamScan to map genes to EC numbers and KEGG pathways instead of PRIAM results (see
The version v3.14.3 of the platform is now deployed: The Access Rights Managment page now uses the new genome selector. A bug prevented SwissProt/TrEMBL annotations to be displayed on the gene info page. This is now corrected. Links to the
MicroScope services (integration of new genomic data) will be closed from December 19th 2020 to January 4th 2021. User support will also be very limited during this period. The LABGeM team wishes you a happy holiday season.
Since 2004, MicroScope has offered a genome analysis service to a large community of microbiologists. The current resources of MicroScope are largely provided by the CEA and the CNRS through the funding of permanent staff and IT resources with the
After the cancellation of 2020 trainings due to the Covid-19 crisis, we are pleased to inform you about MicroScope professional training courses in 2021. Two sessions of the «Annotation and analysis of prokaryotic genomes using the MicroScope platform» course are planned
This year, we worked on improving the genome integration request service. The main new functionality is that the request to update the assembly of a genome, previously transmitted by e-mail, can now be made online using the Delivery of Service Management page
Two novel interactive graphs have been added to the RNA-seq analysis page to summarize, control and explore more deeply the Differentially Expressed Gene (DEG) results. A colored horizontal bar chart displays global statistics for the selected comparison(s). A MA-plot displays
The version 3.14.2 of the platform is now deployed: A new method for the prediction of KO numbers based on KofamScan has been integrated. Read more here. Note that this method allows the prediction of EC numbers. Therefore, the prediction
Two unrelated bugs have recently been fixed concerning BLAST results. The first was missing results in some workflows (e.g. Virulome). This concerned very few results when identical HSPs were detected. The second one affected the output of the BLAST search
We are looking for an enthusiastic Ph.D student to work on the development of new methods for comparative pangenomics. See below a description of the project. The last few years have seen the explosion of sequencing projects leading to a
We are looking for an enthusiastic Ph.D student to work on pangenomes of Archaea. See below a description of the project. A characteristic of natural populations is that they are comprised of individuals that are, in the majority of cases,