genome bacterial data
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5.9 years ago
mittu1602 ▴ 180

I have a list of assembly ids of bacterial genome data, I want to extract the following type of data:

  1. Number of chromosomes
  2. Number of plasmids
  3. Total number of proteins
  4. Chromosome size

How can I extract the information?

Thank you

Assembly genome ncbi • 1.2k views
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Entering edit mode
5.9 years ago
5heikki 10k

You can do probably all of that with Entrez Direct.

For example: epost -db assembly -id 39768 | elink -target genome | efetch -format docsum | xtract.pl -element Number_of_Plasmids
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