It has been a couple of weeks now since we released jackhmmer on the HMMER website and so far (touch wood etc…), it seems to be performing as we had hoped – here on ‘the farm’ we are getting very excited with the results we are observing. What is jackhmmer? Jackhmmer is the iterative search … Continue reading Interactive, iterative searches using jackhmmer
Have you ever wondered how a new protein family would look in context of other Pfam domains? Well, look no further than the hmmer website! At the end of last week we released a new way of visualizing search results according to ‘domain architecture’ (applies to both phmmer and hmmsearch). A ‘domain architecture’ is … Continue reading A different view on search results
From today's email... Suppose, for example, you want to search 300 million metagenomic sequence reads, each about 200nt long, against the Pfam database. What's the best way to do that task with HMMER3? The bottom line: use hmmsearch, not hmmscan. For the numerology of why (and chapter and verse on how hmmsearch and hmmscan scale … Continue reading hmmscan vs. hmmsearch speed: the numerology
The Xfam team in Cambridge is advertising an open curator position. Join the Xfam team, see the world! At least some of the best parts of it: Cambridge UK, Stockholm Sweden, and our beautiful, secluded, mysterious Janelia Farm on the banks of the Potomac River near Washington DC.