From c14dcae815b55dbe7feda2ddb97f06930529954d Mon Sep 17 00:00:00 2001 From: amwaterhouse Date: Fri, 27 May 2005 14:33:10 +0000 Subject: [PATCH] edits --- help/html/io/index.html | 32 +++++++++++++++++++++----------- 1 file changed, 21 insertions(+), 11 deletions(-) diff --git a/help/html/io/index.html b/help/html/io/index.html index c7c4bf8..b067512 100755 --- a/help/html/io/index.html +++ b/help/html/io/index.html @@ -2,29 +2,39 @@ Input/Ouput

Input

-

Jalview can read alignment files in any of the following formats:

-

Fasta , MSF, Clustal, BLC, PIR, MSP, PFAM

-

Use the menu at the top of the main application window to read in files from -

+

Jalview can read alignment files in any of the following standard formats:

+

Fasta (Pearson), GCG-MSF, ALN/ClustalW, AMPS Block file, NBRF/PIR, Pfam/Stockholm

+

The EBI has examples of + these file formats.

+

Additionally annotated alignments can be read in from the Jalview format.

+

Use the "Input Alignment" menu at the top of the main application + window to read in files from

If a file is of an unknown format or there is any other error reading the alignment file you will be given an error message, the alignment will not be read in.

Output

-

Each alignment, whether it is the original or an edited version may be saved - in the formats

-

Fasta , MSF, Clustal, BLC, PIR, MSP, PFAM

+

Each alignment, whether it is the original or an edited version may be saved + in the standard formats

+

Fasta (Pearson), GCG-MSF, ALN/ClustalW, AMPS Block file, NBRF/PIR, Pfam/Stockholm

+

You may save annotated alignments in the Jalview file format.

+

 

+

Export

The alignment may also be saved as a HTML web page.

You may save a Portable Networks Graphics (PNG) image of your alignment.

-

You may save the alignment as an Encapsulated Postscript file. This file can - be easily imported into Microsoft Powerpoint, Microsoft Word or Adobe Illustrator.
+

You may save the alignment as an Encapsulated Postscript file. This is a vector + graphics file which may be modified in various graphics applications, such as + Adobe Illustrator.
+
Tip: When importing to a Microsoft document, a snapshot image is taken of your file - this will be blurred. Right-click the image and choose "Edit image." - This will restore the high quality EPS file format output.

+ This will restore the high quality EPS file format output.
+ NB. Mac OSX users will find that eps files are automatically converted into + PDF files.

The alignment can be printed from a local printer.

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