Hello @Preet_Kaur
Items to check:
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First, be sure that you are using the option on the tool forms to look for collections of input reads. faqs/galaxy/#selecting-a-dataset-collection-as-input
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If the form is looking for a collection but doesn’t find your specific collection, next check that the individual files in your collection were assigned a datatype that matches the input field on the tool form.
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Why the Fastq De-interlacer tool would help is not clear. Is the existing collection a list of datasets? Or a list of dataset pairs? If the reads are already split into pairs, then you won’t need that tool.
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This tool is a great way to get reads from SRA into Galaxy that are sorted into collections: Faster Download and Extract Reads in FASTQ format from NCBI SRA
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These tutorials can help more.
If you are still stuck after reviewing, and please create a shared history link and post that back in your reply. faqs/galaxy/#sharing-your-history. Leaving all datasets undeleted, including your tests, will help to get the best feedback from our community.
Let’s start there 