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Commands in Course Order: Command Usage Comment

This document provides a cheat sheet of common Linux commands used in Cygwin on Windows. It lists commands in both course order and alphabetical order along with a brief description of each command's usage and purpose. Some key commands covered include pwd, ls, mkdir, cd, man, cat, sort, grep, head, tail, less, cp, mv, rm, rmdir. It also demonstrates how to use pipes (|) and aliases to customize commands.

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Pavankumar Karedla
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77 views1 page

Commands in Course Order: Command Usage Comment

This document provides a cheat sheet of common Linux commands used in Cygwin on Windows. It lists commands in both course order and alphabetical order along with a brief description of each command's usage and purpose. Some key commands covered include pwd, ls, mkdir, cd, man, cat, sort, grep, head, tail, less, cp, mv, rm, rmdir. It also demonstrates how to use pipes (|) and aliases to customize commands.

Uploaded by

Pavankumar Karedla
Copyright
© © All Rights Reserved
We take content rights seriously. If you suspect this is your content, claim it here.
Available Formats
Download as PDF, TXT or read online on Scribd
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Linux Cheat Sheet : Cygwin on Windows

Commands in Course Order 

Command Usage Comment


pwd pwd Print your current directory (folder) location
ls ls List the files in the current folder
mkdir mkdir Blast Make a new folder. Example Blast
cd cd /Blast Change to another folder like Blast
cd cd c:/ Change to C drive
cd cd / Change to the root directory. Cygwin files are here
man man pwd Show the manual pages for all command
cat > cat > file1 Create file1 and write data to it
cat >> cat >> file1 Add new lines to the bottom of file1
cat cat file1 Show/display contents of file1 to the screen
cat cat file1 file2 Show/display contents of file1 and file2 to the screen
sort sort file1 Sort the contents of file1
sort sort file1 file2 Sort the contents of file1 and file2 together
alias alias dog = “cat” Assign the work dog to the cat command
alias alias path = “/BioDownload/bin/” Type path instead of /BioDownload/bin/
| cat file1 file2 | sort Called Pipe. Places output of cat into sort
head head TA496Seq1 View the first few lines of a file, especially a large file
tail tail TA496Seq1 View the first few lines of a file, especially a large file
less less TA496Seq1 View a large file and control the output
cp cp file1 file2_copy Make a copy of file1 and call it file2_copy
cp cp file1 /Bioinfo Make a copy of file1 and place it in the folder Bioinfo
cp cp file1 /Bioinfo/cp_test Copy file1 into the folder Bioinfo and call it cp_test
mv mv file1 /Bioinfo Move file1 into the folder Bioinfo
rm rm file1 Permanently delete file1
rm rm /Bioinfo/file2 Delete file2 which is located in the Bioinfo folder
rmdir rmdir /Bioinfo Remove the folder called Bioinfo
grep grep “ATG” file1 Search for ATG in file1
grep grep “ATG” file1 file2 Search for ATG in file1 and file2
grep grep -i “ATG” file1 Search for ATG in file1 regardless of case: Atg, atg, ATg, and so on
grep grep -ic “ATG” file1 Search but return only a count of occurrences of all ATG
grep An excellent reference www.cyberciti.biz/faq/howto-use-grep-command-in-linux-unix/

Commands in Alphabetical Order 

Command Usage Comment


| cat file1 file2 | sort Called Pipe. Places output of cat into sort
alias alias dog = “cat” Assign the work dog to the cat command
alias 1
alias pathx = “/BioDownload/bin/” Type pathx instead of /BioDownload/bin/
cat cat file1 Show/display contents of file1 to the screen
cat cat file1 file2 Show/display contents of file1 and file2 to the screen
cat > cat > file1 Create file1 and write data to it
cat >> cat >> file1 Add new lines to the bottom of file1
cd cd /Blast Change to another folder like Blast
cd cd c:/ Change to C drive
cd cd / Change to the root directory. Cygwin files are here
cp cp file1 file2_copy Make a copy of file1 and call it file2_copy
cp cp file1 /Bioinfo Make a copy of file1 and place it in the folder Bioinfo
cp cp file1 /Bioinfo/cp_test Copy file1 into the folder Bioinfo and call it cp_test
grep grep “ATG” file1 Search for ATG in file1
grep grep “ATG” file1 file2 Search for ATG in file1 and file2
grep grep -i “ATG” file1 Search for ATG in file1 regardless of case: Atg, atg, ATg, and so on
grep grep -ic “ATG” file1 Search but return only a count of occurrences of all ATG
grep An excellent reference www.cyberciti.biz/faq/howto-use-grep-command-in-linux-unix/
head head TA496Seq1 View the first few lines of a file, especially a large file
less less TA496Seq1 View a large file and control the output
ls ls List the files in the current folder
man man pwd Show the manual pages for all command
mkdir mkdir Blast Make a new folder. Example Blast
mv mv file1 /Bioinfo Move file1 into the folder Bioinfo
pwd pwd Print your current directory (folder) location
rm rm file1 Permanently delete file1
rm rm /Bioinfo/file2 Delete file2 which is located in the Bioinfo folder
rmdir rmdir /Bioinfo Remove the folder called Bioinfo
sort sort file1 Sort the contents of file1
sort sort file1 file2 Sort the contents of file1 and file2 together
tail tail TA496Seq1 View the first few lines of a file, especially a large file

Note: there are certain words that are reserved as “commands”. For example we could not use “path” as an
1

alias, but we could use “pathx”.

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