This is a mixed repository for code snippets used in our lab. Feel free to add your pieces of code, and make sure it's nicely annotated. Looking forward to see this list growing.
List of Tools in here:
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R: Base triplet frequency counter for fasta-genome of interest
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R: Create circos plots for Structural Variant analysis
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Python: Extract data from footer of BRASS output files
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Ruby: Write multiple pages of a pdf onto single pages (outputs LaTeX)
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C: Depthreader - extract summary statistics from (optionally gzipped) samtools depth output (10x faster than awk). Compile with
gcc -o depthreader -std=c99 -O3 depthreader.c -lz -lm.