X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2Ffeatures%2FfeaturesFormat.html;fp=help%2Fhtml%2Ffeatures%2FfeaturesFormat.html;h=9f33b7b66d07352c9f0743f6d574e2329d9f5327;hb=4da7d6ec8ef5ff030c6d06d37a099da2d92d7246;hp=84bc5d43bea31aaa0b8c130de546ad6ab154a3a5;hpb=43ee8686fab13cd6952335ade1382adf3226f7a1;p=jalview.git diff --git a/help/html/features/featuresFormat.html b/help/html/features/featuresFormat.html index 84bc5d4..9f33b7b 100755 --- a/help/html/features/featuresFormat.html +++ b/help/html/features/featuresFormat.html @@ -83,7 +83,7 @@
If your sequence annotation is already available in GFF Format (see - http://www.sanger.ac.uk/resources/software/gff/spec.html), + gmod.org/wiki/GFF2), then you can leave it as is, after first adding a line containing only 'GFF' after any Jalview feature colour definitions (this mixed format capability was added in Jalview 2.6). Alternately, @@ -141,7 +141,7 @@ This format allows two alternate ways of referring to a sequence, - either by its text ID, or its index in an associated alignment. + either by its text ID, or its index (base 0) in an associated alignment. Normally, sequence features are associated with sequences rather than alignments, and the sequenceIndex field is given as "-1". In order to specify a sequence by its index in a particular alignment,