Hilbert Mapper is a C++ implementation of Hilbert's space filling curve to represent read coverage on genomic sequences. Although it can be used to represent any unidimensional vector of positive numerical data.

git clone https://github.com/AntoineHo/HilMa.git
cd HilMa
chmod +x install.sh
./install.sh

reading a samtools depth output file:

python hilma.py sam [coverage file from samtools depth] [contig ID]

awk, grep, custom script, ... outputting integer unidimensional data to stdout:

[stdin] | python hilma.py vector - [output prefix]

reading a custom coverage file:

python hilma.py custom [column of IDs] [column of values] [coverage file] [ID of sequence to plot]

This usage may change in future commits!

samtools depth mybam.bam > mybam.cov
python hilma.py mybam.cov contig3

grep contig3 mybam.cov | awk '{print $3}' | python hilma.py vector - custom_prefix

python hilma.py custom custom.cov 0 3 contig_002