search

hsinnan75 / GSAlign

GSAlign: an ultra-fast sequence alignment algorithm for intra-species genome comparison
MIT License
51 stars 16 forks source link

different results with different parameters #13

Closed dongyangzheng closed 2 years ago

dongyangzheng commented 3 years ago

Hi Professor: Did you ever test the different parameters influence on the results . eg. wheat versus rice you know that wheat with large genome , and ABD is very similarity. but when adjust the parameters found that the maf file can range from 4MB to 40MB , 4MB is not a good results. hope you will give some advice on parameter select . I think that the parameters should not affect the results in a huge range. Best regards

hsinnan75 commented 3 years ago

Thank you for the information. Could you show me links for downloading the genome sequences? We'll test and debug on that dataset. Thank you!

dongyangzheng commented 3 years ago

Thank you for the information. Could you show me links for downloading the genome sequences? We'll test and debug on that dataset. Thank you! Professor all data can bed found here
http://plants.ensembl.org/index.html : bread wheat Chinese spring and orza stavia Janponica