02 February 2015

Listing the 'Subject' Sequences in a BLAST database using the NCBI C++ toolbox. My notebook.

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In my previous post ( http://plindenbaum.blogspot.com/2015/01/filtering-fasta-sequences-using-ncbi-c.html ) I've built an application fi...
2 comments:
30 January 2015

Filtering Fasta Sequences using the #NCBI C++ API. My notebook.

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In my previous post ( http://plindenbaum.blogspot.com/2015/01/compiling-c-hello-world-program-using.html ) I've built a simple "Hel...
29 January 2015

Compiling a C++ 'Hello world' program using the #NCBI C++ toolbox: my notebook.

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This post is my notebook for compiling a simple C++ application using the NCBI C++ toolbox ( http://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DO...
05 December 2014

Divide-and-conquer in a #Makefile : recursivity and #parallelism.

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This post is my notebook about implementing a divide-and-conquer strategy in GNU make . Say you have a list of 'N' VCFs files. You...
04 December 2014

XML+XSLT = #Makefile -based #workflows for #bioinformatics

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I've recently read some conversations on Twitter about Makefile-based bioinformatics workflows . I've suggested on biostars.org ( St...
1 comment:
30 October 2014

Visualizing @GenomeBrowser liftOver/chain files using animated #SVG

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I wrote a tool to visualize some UCSC "chain/liftOver" files as an animated SVG file. This tool is available on github at: https...
16 October 2014

IGVFox: Integrative Genomics Viewer control through mozilla Firefox

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I've just pushed IGVFox 0.1 an add-on for Firefox, controlling IGV, the Integrative Genomics Viewer . This add-on allows the users to ...
30 September 2014

Using the Ensembl Regulatory Build to annotate some VCF files

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via UCSC Genome Browser project announcements : "Data from the Ensembl Regulatory Build are now available in the UCSC Genome Browser as...
1 comment:
08 September 2014

It's a kind of magic(5)

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The following question was recently asked on biostars.org : Tool that detects data types :" More specifically I am interested for detec...
1 comment:
03 September 2014

Parallelizing GNU #Make 4 in a #SLURM infrastructure/cluster

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SLURM ( https://computing.llnl.gov/linux/slurm/slurm.html ) is The Simple Linux Utility for Resource Management . It's an open source,...
1 comment: