software or R package to change protein *.msf file to any readable file
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19 months ago
yueli7 ▴ 230

Hello

I have some protein *.msf file. I can not open it.

Which software or R package that can change this kind of *.msf to any readable file?

Thanks in advance for great help!

Best,

Yue

software error • 721 views
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How was this file generated? What does the command file <filename>.msf return? Have you tried head, more and less on the file?

Also, how is the software error tag relevant here?

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Hello RamRS,

Thank you so much for your great help!

I think it is a SQLite database.

Thank you again!

Best,

Yue

-p0xxx:~\$ file OstromR_Set7_Enriched.msf
OstromR_Set7_Enriched.msf: SQLite 3.x database, last written using SQLite version 3007011

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If this is related to your prior question then you need to show output of things @RamRS has asked: change *.msf file into excel file

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From this, it is apparent that the msf file is a database that can be opened in SQLite. OP should be looking for R packages that can read in SQLite DBs, such as RSQLite: https://db.rstudio.com/databases/sqlite/

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Hello RamRS,

Thank you so much for your great help!

Best,

Yue

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Entering edit mode
19 months ago
Mensur Dlakic ★ 20k

If you are talking about sequence alignments in MSF format (sometimes called GCG format), those are plain text files that could be viewed in any text editor. There are many ways to convert them: