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  • Paired- and Single-End Library on SoapDenovo-Trans

    Hello everyone.

    I'm trying to assemble a transcriptome with different assembly programs and with different k-mer sizes.
    I've got both single- and paired-end reads and, to my understanding, both Velvet and Trinity can perform the assembly with this kind of libraries.

    Velvet:


    Trinity: concatenating the single-end reads to the R1 of the paired reads.

    Does anybody knows how to proceed with this kind of assembly in SoapDenovo-trans? There is some information about Soapdenovo2 in the same page where the Velvet information is found, but I don't know if it would be applicable for the -Trans version.

    Thank you for your time.
    Last edited by Apodemus; 04-04-2018, 02:42 AM.

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