tags
454 BAM Bayes' theorem EST Illumina RNAseq SFF SNP SNP analysis alignment alignments annotation assembly comparison bayesian big data biocore biohaskell bioinformatics blast bloom filters carbon footprint climate change clustering conscience data storage de novo de novo assembly de novo genome economy environment evolution fasta frequentist genome sequencing hardware hpc illustration judy arrays k-mer library linux make meta metadata nuclear nuclear power opinion optimization parsing phylogeny population genetics productivity profiling programming science sequence alignment sequence analysis sequencing shell short reads software solar solar power static types statistics transalign ubuntu unexplained varan vector masking war whales xmlArchives
-
The cost of fixing climate change - December 24, 2016
climate change, nuclear, solar, war, economy
Comments -
HP EliteBook Folio G1 - September 12, 2016
linux, hardware, ubuntu
Comments -
CAS-based generic data store - August 3, 2016
science, statistics, whales
Comments -
Why we should stop talking, and start to prepare for climate change - May 23, 2016
climate change, nuclear power, solar power
Comments -
Probabilities for heterozygote genetic markers in hybrids - March 10, 2016
science, statistics, whales
Comments -
Can you trust science? - March 25, 2015
science, statistics
Comments -
Thoughts on phylogenetic trees - February 15, 2015
phylogeny, evolution
Comments -
Information content and allele frequency difference - July 17, 2014
sequence analysis, SNP, varan
Comments -
Expected site information from SNPs - July 2, 2014
bioinformatics, bayesian
Comments -
Big data revisited - May 5, 2014
bioinformatics, opinion, big data
Comments -
Some not-so-grand challenges in bioinformatics - April 8, 2014
bioinformatics, opinion
Comments -
Parallel SNP identification - March 26, 2014
sequence analysis, SNP, population genetics
Comments -
k-mer counting in a high-level language? - November 22, 2013
sequence analysis, k-mer, judy arrays
Comments -
Frequency counting in Haskell - November 11, 2013
sequence analysis, SFF, 454, parsing
Comments -
Generic storage for heterogeneous data - October 1, 2013
data storage, metadata, xml, bioinformatics
Comments -
Updates to the biosff library - September 28, 2013
454, short reads, biohaskell
Comments -
A big data approach to bioinformatics - September 10, 2013
big data, sequence analysis, RNAseq, clustering, transalign
Comments -
Spring cleaning - May 6, 2013
meta
Comments -
Illumina RNAseq and bias - May 6, 2013
Illumina, RNAseq, unexplained
Comments -
Footprints of a cow - May 2, 2013
environment, carbon footprint, conscience
Comments -
My Bayesian Mind - May 2, 2013
Bayes' theorem, frequentist, science
Comments -
The de novo genome project pathway - January 22, 2013
de novo genome, illustration
Comments -
Biocore 0.3.1 is released - January 7, 2013
bioinformatics, biohaskell, library
Comments -
The effect of using different substitution matrices - November 8, 2012
sequence alignment, blast
Comments -
Presentation on the anatomy of de novo genome projects - October 17, 2012
sequence analysis, de novo, genome sequencing
Comments -
Transitive alignments (and why they matter) - October 10, 2012
sequence analysis, alignments, annotation
Comments -
Calculating insert stats from BAM files - September 11, 2012
sequence analysis, BAM
Comments -
Low cost ARM computers - June 15, 2012
hardware
Comments -
Constructing An Assembly Evaluation Pipeline - April 23, 2012
de novo assembly, make, assembly comparison
Comments -
The type system, safety, sequence alignments, and you - April 3, 2012
alignment, static types, programming
Comments -
My blog software - March 30, 2012
meta
Comments -
From alignments to sequence clustering - March 27, 2012
alignment, clustering
Comments -
Recent developments - Flower and Bamstats - January 6, 2012
alignment, sequencing
Comments -
The return of the blog - January 5, 2012
meta
Comments -
Biocore 0.1 is released! - September 19, 2011
biocore, biohaskell
Comments -
Compressing biological sequences - June 22, 2011
sequence analysis, SFF, 454, parsing
Comments -
Presentation on the (lack of) data management practices - June 2, 2011
de novo assembly, make, assembly comparison
Comments -
Searching for poly(A) tails - December 14, 2009
sequence analysis, fasta, EST
Comments -
454 sequencing and parsing the SFF binary format - November 14, 2008
sequence analysis, SFF, 454, parsing
Comments -
The FASTQ file format for sequences - September 9, 2008
software, shell, EST
Comments -
Some thoughts on programmer productivity - August 14, 2008
programming, productivity, biohaskell
Comments -
A plan for Bloom filters - July 31, 2008
sequence analysis, bloom filters
Comments -
Updates and other trivialities - July 31, 2008
software, hpc
Comments -
Functional bash bracketing - July 11, 2008
software, shell, EST
Comments -
Giving users what they want':' Haskell scripts on the web with CGI - May 27, 2008
SNP analysis, whales,
Comments -
Optimization week':' making Haskell go faster - May 18, 2008
sequence analysis, annotation, optimization, profiling
Comments -
Can you spare five minutes? - May 9, 2008
sequence analysis, clustering
Comments -
Cleaning up sequences - May 8, 2008
sequence analysis, vector masking
Comments
Feedback? Please email ketil@malde.org.
