<div dir="ltr">Hi Cacau,<div><br></div><div>It seems "gb" is just an alias for "genbank", but as you've<div>noticed some records are more like manifests for how to</div><div>build up the full record from its parts using a CONTIG</div><div>entry.</div><div><br></div><div>There is also "gbwithparts" which in the NCBI web interface</div><div>is "Genbank (full)", but there can be subtle errors with the</div><div>processing done at the NCBI end.</div><div><br></div><div><a href="http://blastedbio.blogspot.co.uk/2012/03/missing-external-exons-in-genbank-with.html">http://blastedbio.blogspot.co.uk/2012/03/missing-external-exons-in-genbank-with.html</a><br></div><div><a href="http://blastedbio.blogspot.co.uk/2012/04/missing-feature-locations-in-genbank.html">http://blastedbio.blogspot.co.uk/2012/04/missing-feature-locations-in-genbank.html</a><br></div><div><br></div><div>Another possible but not yet confirmed issue:</div><div><a href="http://lists.open-bio.org/pipermail/biopython/2015-September/015746.html">http://lists.open-bio.org/pipermail/biopython/2015-September/015746.html</a><br></div><div><br></div><div>Peter</div><div class="gmail_extra"><br><div class="gmail_quote">On Wed, Sep 23, 2015 at 5:57 AM, Cacau Centurion <span dir="ltr"><<a href="mailto:cacaucenturion2@gmail.com" target="_blank">cacaucenturion2@gmail.com</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr"><div>Hi,</div><div><br></div><div>I would like to download sequences in genbank (full) format in batch. What should the format be (see the codes)?</div><div><br></div><div>I tried 'gb' but got sequences in genbank format. Sometimes the full genome sequences might not be downloaded.</div><div><br></div><div><br></div><div>#code</div><div>$seqin = Bio::SeqIO->new(-file => $out,</div><div> -format => $format,</div><div> ); </div><div><br></div><div><br></div><div>Yours,</div><div>Cacau</div></div>
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