I am new to qiime2 and do not have Linux knowledge. I wanted to cut some parts of old 16S seq data and marge with new data. Could not find a good resource, does anyone have qiime2/Linux commands for that? Thanks
I am not familiar to qiime2. For help with Linux you have many options with the “cut” command on ascii files. The “cut” will remove columns of characters or columns of ascii data. If columns of data are cut it is best to define a delimiter that separates the columns in most cases a space or a tab character. The full options are impossible to describe here in full. Here is a link to the command with examples:
https://www.google.com/amp/s/www.geeksforgeeks.org/cut-command-linux-examples/amp/
If you have 2 or more ascii files and want to combine or concatenation into one file the command to use is “cat”. Here is an example:
cat file01.txt file02.txt file03.txt > newfile01_02_03.txt
Other Linux commands that may help are the ”sort”, “head”, and “tail” commands. The “sort” can sort ascii files by columns using options of alphabetic or numeric. The “head” command will show output for only a selected number of lines in an ascii file in the beginning of the file and the “tail” shows only a select number of lines at the end of a file. The options again are many and are best reviewed by trying and reading the documentation. For example if you want to know how “sort” works in Linux use this command:
man sort
Hope some of the examples will help.
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