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ensembl-gh-mirror
ensembl
Commits
76a646f8
Commit
76a646f8
authored
12 years ago
by
Kieron Taylor
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POD cleanup
parent
cb4537c1
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modules/Bio/EnsEMBL/Feature.pm
+10
-10
10 additions, 10 deletions
modules/Bio/EnsEMBL/Feature.pm
with
10 additions
and
10 deletions
modules/Bio/EnsEMBL/Feature.pm
+
10
−
10
View file @
76a646f8
...
...
@@ -28,7 +28,8 @@ Bio::EnsEMBL::Feature - Ensembl specific sequence feature.
-start => 100,
-end => 220,
-strand => -1,
-slice => $slice -analysis => $analysis
-slice => $slice,
-analysis => $analysis
);
my $start = $feat->start();
...
...
@@ -273,7 +274,6 @@ sub strand {
Arg [1] : int start
Arg [2] : int end
Arg [3] : (optional) int strand
Example : None
Description: Sets the start, end and strand in one call rather than in
3 seperate calls to the start(), end() and strand() methods.
This is for convenience and for speed when this needs to be
...
...
@@ -1412,7 +1412,7 @@ sub get_overlapping_Genes{
=head2 get_nearest_Gene
Description: Get
all
the nearest
gene to the feature
Description: Get the nearest gene to the feature
Returntype : Bio::EnsEMBL::Gene
Caller : general
Status : UnStable
...
...
@@ -1434,7 +1434,7 @@ sub get_nearest_Gene {
Example : $feature_summary = $feature->summary_as_hash();
Description : Retrieves a textual summary of this Feature.
Should be overidden by subclasses for specific tweaking
Should be overidden by subclasses for specific tweaking
Returns : hashref of arrays of descriptive strings
Status : Intended for internal use
=cut
...
...
@@ -1474,7 +1474,7 @@ sub species {
=head2 contig
This method is d
eprecated
and i
ncluded for backwards compatibility only.
D
eprecated
- I
ncluded for backwards compatibility only.
Use slice() instead
=cut
sub
contig
{
...
...
@@ -1486,7 +1486,7 @@ sub contig {
=head2 sub_SeqFeature
This method is deprecated and only f
or genebuild backwards compatibility.
Deprecated - F
or genebuild backwards compatibility.
Avoid using it if possible
=cut
sub
sub_SeqFeature
{
...
...
@@ -1496,7 +1496,7 @@ sub sub_SeqFeature{
=head2 add_sub_SeqFeature
This method is d
eprecated
and
only for genebuild backward
s
compatibility.
D
eprecated
-
only for genebuild backward compatibility.
Avoid using it if possible
=cut
sub
add_sub_SeqFeature
{
...
...
@@ -1530,8 +1530,8 @@ sub add_sub_SeqFeature{
=head2 flush_sub_SeqFeature
This method is d
eprecated
and o
nly for genebuild backwards compatibility.
Avoid using it i
s
f possible
D
eprecated
- O
nly for genebuild backwards compatibility.
Avoid using it if possible
=cut
sub
flush_sub_SeqFeature
{
my
(
$self
)
=
@_
;
...
...
@@ -1572,7 +1572,7 @@ sub _deprecated_transform {
=head2 id
This method is d
eprecated
and
only included for backwards compatibility.
D
eprecated
-
only included for backwards compatibility.
Use display_id, hseqname, dbID or stable_id instead
=cut
...
...
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