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Using Vmatch to combine assemblies - http://jermdemo.blogspot.com/2009...
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R's xtabs for total weighted read coverage - http://jermdemo.blogspot.com/2009...
in search of variable quality trimming scripts for fastq written with biopython
Disable file locking in Eclipse for OS X - http://jermdemo.blogspot.com/2009...
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My 2009 Bridge-to-Bridge Experience - http://jermdemo.blogspot.com/2009...
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Printing a specific line from bash_history - http://jermdemo.blogspot.com/2009...
Looking for a script that will compare two fasta files and tell me which sequences unequivocally exist in one but not the other, and which look very similar but are slightly shorter or longer (lots of overlap). Would prefer this not create BLAST-type index files that I need to clean up.
Charles Dickens DeBruijn Graph - http://jermdemo.blogspot.com/2009...
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this employer spends half their time defending their job postings and the other half defending PHP
- Jeremy Leipzig
Standardized Velvet Assembly Report - http://jermdemo.blogspot.com/2009...
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gregorian calendar craziness - http://jermdemo.blogspot.com/2009...
Beware! Groovy split and tokenize don't treat empty elements the same - http://jermdemo.blogspot.com/2009...
How many times have I lost commands in a long bash history? I found this directory-specific bash history more useful than having just one history: http://dieter.plaetinck.be/per_dir...
Our O'Reilly article "Data Mashups in R" is up: http://oreilly.com/catalog...
Jan Aerts and Pierre Lindenbaum liked this
"Unable to start grails" - http://jermdemo.blogspot.com/2009...
Loading files in grails bootstrap - http://jermdemo.blogspot.com/2009...
Looks like Bionanomatrix is hiring .NET programmers. Not sure that's good news for researchers looking to develop single-molecule next generation sequencing software, though I suppose labs who just want sequences won't care. - http://www.bionanomatrix.com/careers
I'm annoyed that a mature program like Consed is distributed as a 25 item "tarbomb" http://www.linfo.org/tarbomb...
How to set your grails app to different environments in IntelliJ - http://jermdemo.blogspot.com/2009...
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I pick on the WSJ again: A true cost analysis of home prices - http://jermdemo.blogspot.com/2009...
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"How to Review Code". I've never had a code review. I think it would have helped a lot. - http://www.programming4scientists.com/2009...
Jason Stajich and Pierre Lindenbaum liked this
How would one record to a file the maximum memory usage experienced by a process as part of a shell script?
just a vague idea: mixing 'watch' and 'top' and redirect this to a file ?
- Pierre Lindenbaum
specifically I would like to add the max velveth RAM consumption to an assembly report
- Jeremy Leipzig
does this help ? : http://stackoverflow.com/questio...
- Pierre Lindenbaum
looks helpful, thanks
- Jeremy Leipzig
The 'time' command is pretty useful; I think the %M format string parameter gives what you want: http://unixhelp.ed.ac.uk/CGI...
- Brad Chapman
Nice hack Brad, thanks
- Pierre Lindenbaum
A lot of papers seem to claim their tool is a "web service" instead of just a "web site" - http://www.ncbi.nlm.nih.gov/pubmed...
The WSJ made an accounting error - http://jermdemo.blogspot.com/2009...
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