I’ve been very interested in plant genomics projects and it’s been great to see them yield so many interesting papers lately–most recently on the tomato genome and even more on corn analysis. As much as it’s fun to navel-gaze about the human genome for personal genomics, and it is important to get to medical treatments [...]
In my last tip of the week I was really pleased about the opportunity to see the data from a paper set up in a custom GBrowse, but it also reminded me of the limitations of some current strategies for visualization that we are facing. In that case one of the things that I wanted [...]
Plaza, a resource for plant comparative genomics, has a lot more than meets the eye at first. Currently the database has comparative tools and data for nearly 2 dozen plants including monocots, dicots, mosses and algae. There are some obvious tools and data from the homepage, but I suggest you take a look at the [...]
I did a tip on CoGe’s tool, GeVo about two years ago and we’ve had a guest post about CoGe from Eric Lyons, the lead developer of CoGe just over a year ago. In our ongoing and occasional quest to keep our tips fresh (and move them to SciVee), I’ve decided to revisit CoGe and [...]
VISTA has added a couple of new features to their great comparative genomics resource, dot plots and synteny browser. They are excellent features and additions, but they are not yet easy to find from the homepage. Today’s tip I’m going to show you where they are and take a quick look at what they do. [...]
Welcome to our Friday feature link collection: SNPpets. During the week we come across a lot of links and reads that we think are interesting, but don’t make it to a blog post. Here they are for your enjoyment… I couldn’t figure out the folklore part, but this handy little interface called Matrix2png takes lists [...]
Welcome to our Friday feature link collection: SNPpets. During the week we come across a lot of links and reads that we think are interesting, but don’t make it to a blog post. Here they are for your enjoyment… Public health in the genomic era, a report by PHG Foundation, is out. You can access [...]
Welcome to our Friday feature link collection: SNPpets. During the week we come across a lot of links and reads that we think are interesting, but don’t make it to a blog post. Here they are for your enjoyment… NWChem for High-Performance Computational Chemistry has recently gone Open Source. (HT GenomeWeb) [Jennifer] DIYGenomics relates an [...]
A few weeks ago a commenter asked me to compare IMG (Integrated Microbial Genomes) to the UCSC Microbial Genome browser. I’ve been exploring & thinking since then & am going to give a very brief comparison of those two resources in today’s tip & I’ll expand the comparison to other resources here in the text [...]
Usually when we think about comparative genomics data, we are thinking about genomes that are pretty well sequenced, and we want to look at that data with variety of tools and algorithms. But this past week we saw a question about less-well-sequenced genomes, and we thought it was an interesting inquiry. The question was: is [...]
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