Timeline for How to split multifasta based on partial fasta header
Current License: CC BY-SA 3.0
15 events
| when toggle format | what | by | license | comment | |
|---|---|---|---|---|---|
| Mar 29, 2018 at 15:50 | answer | added | Nils Giordano | timeline score: 1 | |
| Dec 14, 2017 at 4:00 | answer | added | Steve Bond | timeline score: 1 | |
| Dec 8, 2017 at 12:27 | comment | added | terdon♦ | OK, no, that summary is useless. It is unstructured and non-standard. For example, it has Peptostreptococcaceae bacterium and Uncultured Peptostreptococcaceae bacterium. I'm afraid this isn't the right way of doing what you need. It would probably be best to use a more sophisticated approach and save each sequence to the right file while downloading by also downloading the meta data for the sequence entry. | |
| Dec 8, 2017 at 12:14 | comment | added | AudileF | For the files you have terdon, use the link and use 'send to: > complete record > file > summary > create file` ncbi.nlm.nih.gov/nuccore/?term=peptostreptococcaceae Im pretty confident they match any left behind I can curate manually. | |
| Dec 8, 2017 at 10:38 | comment | added | terdon♦ | Ah! That summary file can simplify things enormously! Can you link to the entire file? Does it have all the strains and does it have each strain in exactly the same format as it appears in the fasta file header? I am afraid it won't since I've already found inconsistencies. It might be simpler to start from the beginning and download each strain separately. | |
| Dec 8, 2017 at 10:29 | history | edited | AudileF | CC BY-SA 3.0 | added 427 characters in body |
| Dec 8, 2017 at 10:25 | comment | added | terdon♦ | Great, then you should have the GNU tools. Good. Have a look at the updated answer. What does the summary list look like? | |
| Dec 8, 2017 at 10:23 | comment | added | AudileF | Yes Its is a linux system . | |
| Dec 8, 2017 at 10:22 | history | edited | AudileF | CC BY-SA 3.0 | added 453 characters in body |
| Dec 8, 2017 at 10:18 | comment | added | terdon♦ | Unix? Do you mean an actual Unix or macOS or Linux? Please tell us your actual OS, a unix-like system can be assumed if you're doing bioinformatics usually. | |
| Dec 8, 2017 at 10:14 | comment | added | terdon♦ | What operating system are you using? I asked you in your previous question as well but you didn't reply. The tools available to you and their behavior change depending on your OS. | |
| Dec 8, 2017 at 10:09 | history | edited | AudileF | CC BY-SA 3.0 | added 149 characters in body |
| Dec 8, 2017 at 9:58 | answer | added | terdon♦ | timeline score: 0 | |
| Dec 8, 2017 at 9:51 | history | edited | AudileF | CC BY-SA 3.0 | edited body |
| Dec 8, 2017 at 9:45 | history | asked | AudileF | CC BY-SA 3.0 |