Uauy-Lab / bioruby-polyploid-tools

Library and tools to deal with polyploid genomics
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Designing KASP markers for InDels #23

Open kaur-a2023 opened 1 year ago

kaur-a2023 commented 1 year ago

I have been trying to design Indel markers for KASP genotyping for wheat through web-based Polymarker. My file looks something like this:

UI59,7D,ATGCCACACTTATAAAATTATCTTCTACACACTTGCTTAGGATCAAATCAAGCATCATGTCGTGTACTGTGCAACACAACACCTCTCCATACTCGATTTCC[G/-]ATGGCTGAATCATGCTTCTGTTGACGAGCTCATTGAAATAACTCCTGCCAACATCCTCCAAATCTGGCCCATGCAAACTGCTGACGAAGCCTTCAGCTA UI822,7D,CGTACATGTTACCGAACGCCACCGTGCCGACGAAGCCGTCCATGTACCCGAAGACGTGATCCTCCAGACATACTGGTCCCTGTCCATTAACGCTAGCTACT[-/A]GCTAGTCCGCTCACCAGTTTACCCACCTCAGCCTCCCTGGCATACCAGGTGGCCTGGATGCGGCGCTTGCTGAGGAACTCGACGACCAGGAGCTTGCGCC UI456,7D,GGGGTTGCGCCGTCGCCGGAGACACCAGCAAAGTTGTGGCGTCGCGCGTTGTTGCTGTAGGTCGTGTAGAGGAAGCCGGCGAGGGTTTGGGGCAGCTTCTT[GC/-]GGTTGGCGGGGTCGGCGATGAGGTCGCGCCAGCGCACGGAGACGCACTTGAAGCGGTGGAGGGATCTGGCGGGGAGGCGGGAGAGGATCTCCAGGATG

But I am getting the following error:

No such file or directory @ rb_sysopen - /opt/data/tmp//64c2965fd31c6f47d956b0f6_out/to_align.fa.fai

I am not sure if Polymarker cannot be used for InDels or its some kind of issue with my file.

Could you please help me out with the issue. Thanks.