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TF-Chan-Lab / miRDeep-P2_pipeline

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miRNA from repetitive region #2

Open rbio123 opened 2 years ago

rbio123 commented 2 years ago

Hi,

I predicted novel miRNA from miRDP2 and getting some miRNA with same sequence (one is upper case like ACGT... and another is lower case like acgt...) from different genomic location. Is it OK or it invalid?

Could please assist me?

Thanks

alanlamsiu commented 2 years ago

Hi @rbio123,

I just made a modification. Now in the "To collapse unique mature sequences in mature_wo_U.fa" step, it will convert all small letters to capital ones to generate the unique miRNA sequences, meaning that any sequences with the same letters, regardless whether they are in small or capital letters, will be merged to give the unique sequences. You should be able to use the pipeline now with your input file.

Thanks!