About This Page
It is possible to annotate genes using only web-based tools. However, since many bioinformatics programs are initially designed for UNIX systems, one can also use a command-line system to run BLAST and RepeatMasker. This requires an introduction to UNIX, also essential to running Consed and phredPhrap. A training worksheet and answer key are provided here.
Learning to Use UNIX
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Command Line Unix: BLAST, RepeatMasker, Herne
Instructions for running BLAST, RepeatMasker, and the BLAST output viewer Herne on the command-line
- Last update: 06/30/2006
- Tags: Annotation BLAST RepeatMasker UNIX
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Unix Commands: Quick Reference Sheet
A Unix reference sheet for commonly used Unix commands
Download links:
PDF- Last update: 06/30/2006
- Tags: Command line Reference sheet UNIX
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Introduction to UNIX Exercise
A simple exercise on using simple Unix commands to navigate to different directories and manipulate files.
- Last update: 06/30/2006
- Tags: Command line UNIX
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Annotation Unix Worksheet
Exercise that uses UNIX tools (command-line BLAST and RepeatMasker) for gene annotations.
Download links:
PDF- Last update: 06/30/2006
- Tags: BLAST Herne RepeatMasker UNIX