UGENE Forum - Problem with SPAdes assembly

Dec 26^th, 2024 at 5:58pm

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Problem with SPAdes assembly (Read 3934 times)

Nov 2^nd, 2023 at 7:52pm

Jesus Offline
YaBB Newbies

Posts: 1

Hi, I am trying to assemble two .fq files obtained with illumina paired ends. This files already have been used to assemble contigs using Shovill of Galaxy, however, when I try to run an assembly with UGene, the pipe stops with the message "Subtask {GenomeAssemblyTask} is failed: Subtask {SPAdes tool} is failed: SPAdes tool exited with code 245". Can you give any advice, please?

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Reply #1 - Nov 30^th, 2024 at 12:43am

kimon58 Offline
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California

Posts: 4

Ensure that your .fq files are clean and do not have any errors in the data (e.g., quality control issues). You could run a QC step using tools like FastQC to check the quality of your reads before attempting assembly.

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