A Python library to find the position on the human Y chromosome tree given a set of single nucleotide polymorphisms (SNPs).
Project description
yclade
A Python library to find the position on the human Y chromosome tree given a set of single nucleotide polymorphisms (SNPs).
Installation
pip install yclade
Usage
import yclade
snp_string = "M215+, BY61636-, FTF15749-, TY15744-"
yclade.find_clade(snp_string)
Command-line usage
python -m yclade "M215+, BY61636-, FTF15749-, TY15744-"
You can also use a file with the SNPs:
python -m yclade -f snps.txt
Credits
The Y tree data is from YFull and is shared under the Creative Commons Attribution 4.0 International Public License.
The code has been tested on SNP data obtained from YSEQ test results.
Inspiration has also been drawn from clade-finder.
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