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Detecting SNPs, SNVs using CLC genomics wqorkbench



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  • Detecting SNPs, SNVs using CLC genomics wqorkbench

    Hi everyone!

    I am quite new to this field, and as such have a lot of questions but I don't know how to frame it...so please excuse me as I display my ignorance

    I have the clc genomic workbench software and I plan to use it to analyze some data from a fly (insect)species. This species isn't studied a lot yet, thus there is no reference genome to compare my results with. However I want to compare it with insect species that already have a reference genome eg D.Melanogaster.

    My question is, what steps should I take (using clc's features) from beginning to end so as to reach the step of looking for the variants? I know clc has features like trim sequences, mapping, de novo assembly, variant detection, annotating variants etc....

    Any ideas/suggestions will be much appreciated

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