Re: [igraph] get.adgedgelist suggests non existing loop

[Gábor Csárdi]

On Sun, Feb 16, 2014 at 11:58 AM, Hermann Norpois <address@hidden> wrote:

Hello,

I observed the phenomenon that the first vertex suggests to be connected to itself -

Why would that be the case?

Gabor

 

following the command get.adjelist. But this is not the case. Did I miss anything?

Thanks Hermann

Example:
get.adjedgelist (huz)

$rs112856858
[1] 1 2 3 4 5 6 7

$rs7366404
[1] 8 9

$rs117086422
[1]  1 10 11 12 13 14 15

...
It is not the case for:
str (huz)
IGRAPH UNW- 11 31 --
+ attr: name (v/c), x (v/n), y (v/n), weight (e/n)
+ edges (vertex names):
rs112856858 -- rs117086422, rs57760052, rs28612348, rs58781670,
               rs4475691, rs950122, rs3905286
rs7366404 -- rs4970334, rs4970333

.....
... and:
huz[,]
11 x 11 sparse Matrix of class "dgCMatrix"
   [[ suppressing 11 column names ‘rs112856858’, ‘rs7366404’, ‘rs117086422’ ... ]]
                                                                         
rs112856858 .        .        0.905914 0.918142 0.862112 .        0.851176
rs7366404   .        .        .        .        .        0.965777 .



dput (huz)
structure(list(11, FALSE, c(2, 3, 4, 6, 8, 9, 10, 5, 7, 3, 4,
6, 8, 9, 10, 4, 6, 8, 9, 10, 6, 8, 9, 10, 7, 8, 9, 10, 9, 10,
10), c(0, 0, 0, 0, 0, 0, 0, 1, 1, 2, 2, 2, 2, 2, 2, 3, 3, 3,
3, 3, 4, 4, 4, 4, 5, 6, 6, 6, 8, 8, 9), c(0, 1, 9, 2, 10, 15,
7, 3, 11, 16, 20, 8, 24, 4, 12, 17, 21, 25, 5, 13, 18, 22, 26,
28, 6, 14, 19, 23, 27, 29, 30), c(0, 1, 2, 3, 4, 5, 6, 7, 8,
9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24,
25, 26, 27, 28, 29, 30), c(0, 0, 0, 1, 3, 6, 7, 11, 13, 18, 24,
31), c(0, 7, 9, 15, 20, 24, 25, 28, 28, 30, 31, 31), list(c(1,
0, 1), structure(list(), .Names = character(0)), structure(list(
    name = c("rs112856858", "rs7366404", "rs117086422", "rs57760052",
    "rs28612348", "rs4970334", "rs58781670", "rs4970333", "rs4475691",
    "rs950122", "rs3905286"), x = c(845274L, 845283L, 845635L,
    845938L, 846078L, 846338L, 846398L, 846489L, 846808L, 846864L,
    847228L), y = c(22.613664, 6.872323, 24.143785, 25.418544,
    27.025684, 6.891312, 23.619718, 6.853977, 24.952302, 26.177151,
    25.863288)), .Names = c("name", "x", "y")), structure(list(
    weight = c(0.905914, 0.918142, 0.862112, 0.851176, 0.830663,
    0.828752, 0.795978, 0.965777, 0.954814, 0.968856, 0.91619,
    0.899706, 0.886057, 0.905914, 0.847388, 0.948302, 0.928708,
    0.918511, 0.918142, 0.877348, 0.879914, 0.967857, 0.967698,
    0.926782, 0.988668, 0.852178, 0.851176, 0.811661, 0.956284,
    0.917279, 0.916858)), .Names = "weight"))), class = "igraph")

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