db query change suggestion and retmax value #4
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I tried to gather the entrezID of a list of ~2000 RefSeq entries. At the first, I stopped at the limit of the retrieved set size, 20, which is very low for the usual application of this kind of program, so, I set to the maximum value if a consistency check. Then, I still had problems gathering many of the sequences which were not available on the gene database, so I had to change to nucleotide the query database. An example is the MK966151 RefSeq. You can find its Entrez on the link: https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?db=nucleotide&term=MK966151 but you will not find it on: https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?db=gene&term=MK966151[ACCN]
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Hi,
I used your code on a job interview and it helped me a lot, however, I had to make some changes to use it.
I tried to gather the entrezID of a list of ~2000 RefSeq entries. At the first, I stopped at the limit of the retrieved set size, 20, which is very low for the usual application of this kind of program, so, I set to the maximum value and consistency.
Then, I still had problems gathering many of the sequences which were not available on the gene database, so I had to change to nucleotide the query database.
An example is the MK966151 RefSeq. You can find its Entrez on the link:
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?db=nucleotide&term=MK966151
but you will not find it on:
https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?db=gene&term=MK966151[ACCN]
Thank you a lot,