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miRNA pipeline guide

Hello, i'm an university student, as an end-of-course project I have to perform a pipeline for miRNA, as in the image ...., you could suggest me which tools to use and how to proceed. pipeline Thank you all

sequencing
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written by jiovy1991 • jiovy1991

thanks for the answer, the problem is mainly related to the computational resources we have (a machine with 16gb ram and i7-7700HQ), in fact trying to index the entire human genome (hg38) with BWA (used in a tutorial in the classroom) crashes due to lack of resources ... I'll try the tools mentioned.

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written by jiovy1991 • jiovy1991

1 answer

Hi, You can use cutadapt to remove adapter sequences and bowtie to map the reads. A good tool Is sRNAbench or SPAR

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written by giorgio.giurato • giorgio.giurato

thanks for the answer, the problem is mainly related to the computational resources we have (a machine with 16gb ram and i7-7700HQ), in fact trying to index the entire human genome (hg38) with BWA (used in a tutorial in the classroom) crashes due to lack of resources ... I'll try the tools mentioned.

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written by jiovy1991 • jiovy1991

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