compseq: add page

[kamurani]

• The page(s) are in the correct platform directories: common, linux, osx, windows, sunos, android, etc.
• The page(s) have at most 8 examples.
• The page description(s) have links to documentation or a homepage.
• The page(s) follow the content guidelines.
• The PR title conforms to the recommended templates.
• Version of the command being documented (if known): EMBOSS:6.6.0.0

[CLAassistant]

All committers have signed the CLA.

[kamurani]

Alternative documentation link (to identical webpage content):

https://emboss.sourceforge.net/apps/cvs/emboss/apps/compseq.html

[Magrid0]

Looks good to me, thanks for your contribution
The only thing is that maybe there are a bit too much example but they're not more than 8 so it's fine

[sebastiaanspeck]

Suggested change

	`compseq {{example.fasta}}`
	`compseq {{path/to/file.fasta}}`

[sebastiaanspeck]

Suggested change

	`compseq {{example_protein.fasta}} -word 2 {{result1.comp}}`
	`compseq {{path/to/input_file.fasta}} -word 2 {{path/to/output_file.comp}}`

[sebastiaanspeck]

Suggested change

	`compseq {{example_dna.fasta}} -word 6 {{result2.comp}} -nozero`
	`compseq {{path/to/input_file.fasta}} -word 6 {{path/to/output_file.comp}} -nozero`

[sebastiaanspeck]

Suggested change

	`compseq -sequence {{example_rna.fasta}} -word 3 {{result3.comp}} -nozero -frame {{1}}`
	`compseq -sequence {{path/to/input_file.fasta}} -word 3 {{path/to/output_file.comp}} -nozero -frame {{1}}`

[sebastiaanspeck]

Suggested change

	`compseq -sequence {{example_rna.fasta}} -word 3 {{result4.comp}} -nozero -frame 3`
	`compseq -sequence {{path/to/input_file.fasta}} -word 3 {{path/to/output_file.comp}} -nozero -frame 3`

[sebastiaanspeck]

Suggested change

	`compseq -sequence {{human_proteome.fasta}} -word 3 {{result5.comp}} -nozero -infile {{prev.comp}}`
	`compseq -sequence {{path/to/input_file.fasta}} -word 3 {{path/to/output_file1.comp}} -nozero -infile {{path/to/output_file2.comp}}`

[sebastiaanspeck]

Suggested change

	`compseq -sequence {{human_proteome.fasta}} -word 3 {{result6.comp}} -nozero -calcfreq`
	`compseq -sequence {{path/to/input_file.fasta}} -word 3 {{path/to/output_file.comp}} -nozero -calcfreq`

[kamurani]

Thanks for your suggestions @sebastiaanspeck , I agree showing that it accepts a path is more clear.

However, would it still be good having different example filenames (as opposed to always being path/to/input_file.fasta) -- for example, I want to highlight that the program can be equivalently used for amino acid and nucleotide sequences.

[sebastiaanspeck]

However, would it still be good having different example filenames (as opposed to always being path/to/input_file.fasta) -- for example, I want to highlight that the program can be equivalently used for amino acid and nucleotide sequences.

If that clarifies the example, that is a good thing to do.

[kbdharun]

@sebastiaanspeck If possible, can you update your suggestions to use the example names as the author suggests?

[sebastiaanspeck]

LGTM, after the suggestions are applied

[kbdharun]

LGTM, Thanks for your contribution.

[sebastiaanspeck]

LGTM, after the suggestions are applied

[kamurani]

LGTM, after the suggestions are applied

@sebastiaanspeck added your suggestions but modified them to still retain information such as the sequence type (amino acid / nucleotide) in the input filename to match the examples' descriptions.