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Look into potential uses of seqspec #113

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balajtimate opened this issue Mar 30, 2023 · 1 comment
Open

Look into potential uses of seqspec #113

balajtimate opened this issue Mar 30, 2023 · 1 comment
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@balajtimate
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Seqspec (https://github.com/IGVF/seqspec) is a machine-readable specification for libraries, a file format based on yaml, that enables sequence read annotation. The scope is broader than ours, including ATAC-Seq, WGS, SHARE-Seq, also not just Illumina.

We could explore the uses of seqspec in relation to HTSinfer, maybe compare the results in some known cases (e.g. detailed information from publication/sequencing kit), in terms of region_type, min_len and max_len.

The article can be found here: https://www.biorxiv.org/content/10.1101/2023.03.17.533215v1.full

@balajtimate
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I'll look into the details further, just wanted to have it here so it doesn't get left out.

@uniqueg uniqueg added the future Will not be worked on for now label Dec 20, 2023
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