Replace whitespace with a comma in a text file in Linux

by 
tr ' ' ',' <input >output

Substitutes each space with a comma, if you need you can make a pass with the -s flag (squeeze repeats), that replaces each input sequence of a repeated character that is listed in SET1 (the blank space) with a single occurrence of that character.

Use of squeeze repeats used to after substitute tabs:

tr -s '\t' <input | tr '\t' ',' >output

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