Timeline for Entrez (Biopython) esearch and efetch not returning sequence as expected
Current License: CC BY-SA 4.0
5 events
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| Jun 4, 2021 at 8:05 | comment | added | Pierre-Edouard Guerin |
If you want to filter your queries from the nucleotide database in order to get only the specific genes you can check my code as an example: gitlab.mbb.univ-montp2.fr/bev/target_genes_from_ncbi/-/blob/…
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| Jun 4, 2021 at 8:03 | comment | added | Pierre-Edouard Guerin |
It is simply 2 differents databases. The ID into nucleotide is not the same into gene. Thus from the website NCBI it is possible to extract a fasta from a gene query it doesn't seem possible with biopython biopython.readthedocs.io/en/latest/chapter_entrez.html
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| Jun 3, 2021 at 9:34 | comment | added | blammo69 | Thank you, this gets me what I wanted. Out of interest though, do you know why using the gene database for this wouldn't work? (I'm new to Entrez). | |
| Jun 3, 2021 at 9:33 | vote | accept | blammo69 | ||
| Jun 2, 2021 at 9:23 | history | answered | Pierre-Edouard Guerin | CC BY-SA 4.0 |