Transforming file formats has always been a troublesome issue in bioinformatics because of the numerous standards and slight eccentricities in formatting required by some software packages. How many times have you needed to transform chromosome names between 1,2,3 and chr1, Continue reading File Chameleon, easily transform Ensembl FTP files
The Variant Effect Predictor (VEP) is one of Ensembl’s most popular tools. It has grown in 6 years from a simple perl script with just a couple of hundred lines of code to become a multi-limbed beast with thousands of Continue reading Unwrap the new VEP for Christmas!
BiomaRt is a Bioconductor package that make accessing and retrieving Ensembl data from the R software very easy. The recent Bioconductor 3.1 release includes a new version of BiomaRt packed with many new Ensembl friendly functions allowing you to connect Continue reading BiomaRt or how to access the Ensembl data from R
After running our brand new Ensembl Regulatory Build on the human GRCh38 and GRCh37 assemblies, we spent some time revamping our current Regulation mart to make it faster, easier to use and pack it with brand new features. A complete re-design of the mart has Continue reading Say hello to the new Regulation mart
Are you a rat person, i.e. do you work on rat? Are you joining the 9th Rat Genomics and Models conference in December? Could you spare another day after the meeting before heading back home? If so, this post is for Continue reading Extra extra extra: Ensembl workshop at the ‘Rat Genomics and models’ conference!
In our latest release of Ensembl, we launched a brand new web interface for the VEP (Variant Effect Predictor). As “it says on the tin”, the VEP predicts the effect of variants (i.e. SNPs, indels and CNVs) on genes and regulatory Continue reading The revamped VEP