Program gto_genomic_reverse

The gto_genomic_reverse reverses the ACGT bases order for each read in a sequence file.

For help type:

./gto_genomic_reverse -h


In the following subsections, we explain the input and output paramters.

Input parameters

The gto_genomic_reverse program needs two streams for the computation, namely the input and output standard. The input stream is a sequence file.

The attribution is given according to:

Usage: ./gto_genomic_reverse [options] [[--] args]
or: ./gto_genomic_reverse [options]

It reverses the ACGT bases order for each read in a sequence file.

-h, --help show this help message and exit

Basic options
< input.seq Input sequence file (stdin)
> output.seq Output sequence file (stdout)

Example: ./gto_genomic_reverse < input.seq > output.seq


An example of such an input file is:

ACAAGACGGCCTCCTGCTGCTGCTGCTCTCCGGGGCCACGGCCCTGGAGGGTCCACCGCTGCCCTGCTGCCATTGTCCCC
GGCCCCACCTAAGGAAAAGCAGCCTCCTGACTTTCCTCGCTTGGGCCGAGACAGCGAGCATATGCAGGAAGCGGCAGGAA
GTGGTTTGAGTGGACCTCCGGGCCCCTCATAGGAGAGGAAGCTCGGGAGGTGGCCAGGCGGCAGGAAGCAGGCCAGTGCC
GCGAATCCGCGCGCCGGGACAGAATCTCCTGCAAAGCCCTGCAGGAACTTCTTCTGGAAGACCTTCTCCACCCCCCCAGC
TAAAACCTCACCCATGAATGCTCACGCAAGTTTAATTACAGACCTGAAACAAGATGCCATTGTCCCCCGGCCTCCTGCTG
CTGCTGCTCTCCGGGGCCACGGCCACCGCTGCCCTGCCCCTGGAGGGTGGCCCCACCGGCCGAGACAGCGAGCATATGCA
GGAAGCGGCAGGAATAAGGAAAAGCAGCCTCCTGACTTTCCTCGCTTGGTGGTTTGAGTGGACCTCCCAGGCCAGTGCCG
GGCCCCTCATAGGAGAGGAAGCTCGGGAGGTGGCCAGGCGGCAGGAAGGCGCACCCCCCCAGCAATCCGCGCGCCGGGAC
AGAATGCCCTGCAGGAACTTCTTCTGGAAGACCTTCTCCTCCTGCAAATAAAACCTCACCCATGAATGCTCACGCAAGTT
TAATTACAGACCTGAA


Output

The output of the gto_genomic_reverse program is a group sequence.

Using the input above, an output example for this is the following:

AAGTCCAGACATTAATTTGAACGCACTCGTAAGTACCCACTCCAAAATAAACGTCCTCCTCTTCCAGAAGGTCTTCTTCA
AGGACGTCCCGTAAGACAGGGCCGCGCGCCTAACGACCCCCCCACGCGGAAGGACGGCGGACCGGTGGAGGGCTCGAAGG
AGAGGATACTCCCCGGGCCGTGACCGGACCCTCCAGGTGAGTTTGGTGGTTCGCTCCTTTCAGTCCTCCGACGAAAAGGA
ATAAGGACGGCGAAGGACGTATACGAGCGACAGAGCCGGCCACCCCGGTGGGAGGTCCCCGTCCCGTCGCCACCGGCACC
GGGGCCTCTCGTCGTCGTCGTCCTCCGGCCCCCTGTTACCGTAGAACAAAGTCCAGACATTAATTTGAACGCACTCGTAA
GTACCCACTCCAAAATCGACCCCCCCACCTCTTCCAGAAGGTCTTCTTCAAGGACGTCCCGAAACGTCCTCTAAGACAGG
GCCGCGCGCCTAAGCGCCGTGACCGGACGAAGGACGGCGGACCGGTGGAGGGCTCGAAGGAGAGGATACTCCCCGGGCCT
CCAGGTGAGTTTGGTGAAGGACGGCGAAGGACGTATACGAGCGACAGAGCCGGGTTCGCTCCTTTCAGTCCTCCGACGAA
AAGGAATCCACCCCGGCCCCTGTTACCGTCGTCCCGTCGCCACCTGGGAGGTCCCGGCACCGGGGCCTCTCGTCGTCGTC
GTCCTCCGGCAGAACA