tags
454 BAM Bayes' theorem EST Illumina RNAseq SFF SNP analysis alignment alignments annotation assembly comparison biocore biohaskell bioinformatics blast bloom filters carbon footprint clustering conscience de novo de novo assembly de novo genome environment fasta frequentist genome sequencing hardware hpc illustration library make meta optimization parsing productivity profiling programming science sequence alignment sequence analysis sequencing shell software static types unexplained vector masking whalesRecent posts
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Spring cleaning
- May, 2013
metaSome updates to this blog, and posting of various material that has been sitting around for far too long.
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Illumina RNAseq and bias
- May, 2013
Illumina, RNAseq, unexplainedTurns out RNAseq is inherently biased. This came as a surprise to me, and although this is in the literature, I don't think our tools take it into account. More interesting is that I'm not convinced the usual explanation - differences in random hexamer binding affinity - is the right one.
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Footprints of a cow
- May, 2013
environment, carbon footprint, conscienceSome of my neighbors are enthusiastic about sustainability, the environment, and related issues. This rubs off, and I've borrowed a couple of books on carbon footprints. I'm still busy reading, but one obvious conclusion so far is: the cows gotta go.
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