wresch.github.io wresch.github.io

wresch.github.io

Wolfgang Resch

Wolfgang Resch - Notes. Process a VCF file with htslib. How to model dwell time of proteins on DNA binding sites in R - part 1. Visualizing algorithms - an article by Mike Bostock. Smoothing data with Savitzky-Golay filters. Use newline or tab in replacement with `replace-string` or `replace-regexp` in emacs. Aligning ggplot2 graphs on a page. Bash named pipes and process substitution. Matching up homologous genes from different organisms with homologene. Short circuit evaluation of conditionals in bash.

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Wolfgang Resch | wresch.github.io Reviews
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Wolfgang Resch - Notes. Process a VCF file with htslib. How to model dwell time of proteins on DNA binding sites in R - part 1. Visualizing algorithms - an article by Mike Bostock. Smoothing data with Savitzky-Golay filters. Use newline or tab in replacement with `replace-string` or `replace-regexp` in emacs. Aligning ggplot2 graphs on a page. Bash named pipes and process substitution. Matching up homologous genes from different organisms with homologene. Short circuit evaluation of conditionals in bash.
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1 publications
2 mdash;
3 pbs job arrays
4 bash module mailcmd
5 merging bigwig files
6 r project template
7 splitting bash pipelines
8 subplots with ggplot2
9 coupons
10 reviews
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Wolfgang Resch | wresch.github.io Reviews

https://wresch.github.io

Wolfgang Resch - Notes. Process a VCF file with htslib. How to model dwell time of proteins on DNA binding sites in R - part 1. Visualizing algorithms - an article by Mike Bostock. Smoothing data with Savitzky-Golay filters. Use newline or tab in replacement with `replace-string` or `replace-regexp` in emacs. Aligning ggplot2 graphs on a page. Bash named pipes and process substitution. Matching up homologous genes from different organisms with homologene. Short circuit evaluation of conditionals in bash.

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wresch.github.io wresch.github.io
1

Make tutorial slides geared towards bioinformatics pipelines

http://wresch.github.io/2014/04/08/make-presentation.html

Wolfgang Resch - Notes. Make tutorial slides geared towards bioinformatics pipelines. April 8, 2014. To our bioinformatics group on using make to set up bioinformatics pipelines. I ran out of time, so there are some sections on alternatives to make and automatic makefile generation that are missing. Laquo; Newer post. Older post ».

2

Running a command with a timeout

http://wresch.github.io/2013/07/24/command-with-timeout.html

Wolfgang Resch - Notes. Running a command with a timeout. July 24, 2013. I needed to run a command with a timeout (basically to check non-interactively whether passwordless access to a machine was set up) and found the answer in this answer. Perl -e '$s = shift; $SIG{ALRM} = sub { print STDERR "Timeout! N"; kill INT = $p }; exec(@ARGV) unless $p = fork; alarm $s; waitpid $p, 0'. I used this to check if password less login was working in a makefile with the following script:. Possibly hanging job and {.

3

Publications

http://wresch.github.io/publications.html

Wolfgang Resch - Notes. Authors that contributed equally are boxed. RAG Represents a Widespread Threat to the Lymphocyte Genome. Teng G, Maman Y, Resch W. Kim M, Yamane A, Qian J, Kieffer-Kwon KR, Mandal M, Ji Y, Meffre E, Clark MR, Cowell LG, Casellas R, Schatz DG [Cell. 2015 Aug 13;162:751-765] Pubmed. B Cell Super-Enhancers and Regulatory Clusters Recruit AID Tumorigenic Activity. Qian J, Wang Q, Dose M, Pruett N. Kieffer-Kwon KR, Resch W. Kieffer-Kwon KR, Tang Z, Mathe E, Qian J, Sung MH. Global regu...

4

Process a VCF file with htslib

http://wresch.github.io/2014/11/18/process-vcf-file-with-htslib.html

Wolfgang Resch - Notes. Process a VCF file with htslib. November 18, 2014. Are migrating to a single underlying library for dealing with the various high-throughput sequencing data formats (SAM, BAM, CRAM, VCF, BCF, and tabix). The library is called htslib. I wanted to filter the VCF file. From the Sanger mouse genome project. Open VCF (or BCF) file and extract the number of samples present and the sequence names. Use '-' for stdin. Bcf open will open bcf and vcf files. File %s contains %i samples. Of se...

5

Aligning ggplot2 graphs on a page

http://wresch.github.io/2014/05/22/aligning-ggplot2-graphs.html

Wolfgang Resch - Notes. Aligning ggplot2 graphs on a page. May 22, 2014. Let’s say you have two graphs, a box plot and a line graph, with the same x axis and would like to have them aligned in a single two panel plot. Since the y axes are unrelated, we want to keep them as separate panels and avoid a confusing secondary y axis but we want the line graph to be smaller and sit on top of the box plot. Some libraries we’re going to need. Loading required package: grid. Figure 1: Box plot. And the plot itself.

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Wolfgang Resch

Wolfgang Resch - Notes. Process a VCF file with htslib. How to model dwell time of proteins on DNA binding sites in R - part 1. Visualizing algorithms - an article by Mike Bostock. Smoothing data with Savitzky-Golay filters. Use newline or tab in replacement with `replace-string` or `replace-regexp` in emacs. Aligning ggplot2 graphs on a page. Bash named pipes and process substitution. Matching up homologous genes from different organisms with homologene. Short circuit evaluation of conditionals in bash.

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San Diego Web Site Design. San Diego Web Designers, Web Developers,. Web Coders and Web Programmers. San Diego Web Site Design Services. What Services Should A Good San Diego Web Site Design Provider Have Available. Find Out Here. About The San Diego Website Design Advice Team. Bookmark Wrescue Com / Add to Favorites. Come back to see what fresh information we may have on San Diego Web Site Design. San Diego Web Site Design Home Page. All our pages and links can be reached from here. You want to create a...