I created a Reindeer index on the T2T genome, and then queried the genome against the index in order to get the counts of all the kmers. The commands I ran were:
Chromosomes 17, 18, and M have the expected output. I did run a query on a subset of chromosome 1, and it did seem to produce the correct output. I'm not sure if there is some error with really long sequence lengths. Thanks for any suggestions.
Hello,
I created a Reindeer index on the T2T genome, and then queried the genome against the index in order to get the counts of all the kmers. The commands I ran were:
However, for most of the chromosomes the result file only had "*". I have uploaded the reindeer index folder and result file here: https://drive.google.com/drive/folders/1P3ABKTFboLuiQ_YjWfsmz-Q3kLXWCfpL?usp=drive_link
Chromosomes 17, 18, and M have the expected output. I did run a query on a subset of chromosome 1, and it did seem to produce the correct output. I'm not sure if there is some error with really long sequence lengths. Thanks for any suggestions.