[R-sig-eco] FPT and Adehabitat
Samantha Patrick
samantha.patrick at plymouth.ac.uk
Wed Apr 21 12:36:11 CEST 2010
The data set is pasted at the bottom of the email and this is the code I am using (excluding data read):
ddate <-as.POSIXct(datetime)
burst<-as.factor(FPT[,6])
id<-as.factor(FPT[,6])
xy<-data.frame (FPT[,7], FPT[,8])
yaya<-as.ltraj(xy,ddate,id, burst, typeII = TRUE, slsp = c("remove", "missing"))
summary.ltraj(yaya)
ayayGPS <- redisltraj(yaya, 500)
fptshort=fpt(ayayGPS, seq(5000,30000, length=6))
I am wondering if the outputs are for the redistributed locations? If this is the case, is there any way to get FPT for raw locations (I want to compare the results with other measures of sinuosity etc.)? The timing of bursts is not constant though...
Many thanks for your help
Best Wishes
Sam
dddate tttime Lat Lon ID Burst xx yy
2006-06-21 15:09:48 -5.48138 51.73081 6.2 6.2 742965.87000 5736959.30000
2006-06-21 15:12:01 -5.48146 51.73082 6.2 6.2 742960.28000 5736960.50000
2006-06-21 15:14:58 -5.48583 51.72864 6.2 6.2 742670.66000 5736703.30000
2006-06-21 15:17:24 -5.48699 51.72929 6.2 6.2 742586.76000 5736771.50000
2006-06-21 15:20:30 -5.49569 51.73421 6.2 6.2 741960.22000 5737289.50000
2006-06-21 15:22:43 -5.51323 51.73561 6.2 6.2 740742.05000 5737387.10000
2006-06-21 15:24:56 -5.52846 51.74312 6.2 6.2 739650.90000 5738172.20000
2006-06-21 15:27:18 -5.54604 51.74984 6.2 6.2 738402.38000 5738861.10000
2006-06-21 15:29:36 -5.56479 51.75534 6.2 6.2 737079.38000 5739411.70000
2006-06-21 15:31:55 -5.58231 51.76059 6.2 6.2 735843.10000 5739938.30000
2006-06-21 15:34:31 -5.60271 51.76500 6.2 6.2 734413.21000 5740363.20000
2006-06-21 15:37:07 -5.62265 51.76815 6.2 6.2 733021.53000 5740648.70000
2006-06-21 15:39:26 -5.64052 51.77049 6.2 6.2 731776.44000 5740852.10000
2006-06-21 15:42:20 -5.66318 51.77429 6.2 6.2 730194.48000 5741203.40000
2006-06-21 15:44:42 -5.68139 51.78069 6.2 6.2 728906.38000 5741857.50000
2006-06-21 15:46:55 -5.69897 51.78288 6.2 6.2 727682.52000 5742045.20000
2006-06-21 15:49:13 -5.71702 51.78535 6.2 6.2 726426.04000 5742264.20000
2006-06-21 15:52:13 -5.74030 51.79218 6.2 6.2 724786.32000 5742950.60000
2006-06-21 15:54:37 -5.75805 51.79961 6.2 6.2 723526.28000 5743722.30000
2006-06-21 15:57:25 -5.78056 51.80464 6.2 6.2 721949.58000 5744212.70000
2006-06-21 15:59:37 -5.78381 51.80597 6.2 6.2 721719.39000 5744350.60000
2006-06-21 16:01:48 -5.78273 51.80650 6.2 6.2 721790.85000 5744413.50000
2006-06-21 16:04:06 -5.78262 51.80813 6.2 6.2 721790.77000 5744595.10000
2006-06-21 16:06:19 -5.78165 51.80903 6.2 6.2 721852.86000 5744698.10000
2006-06-21 16:08:31 -5.78108 51.81042 6.2 6.2 721885.22000 5744853.70000
2006-06-21 16:11:07 -5.78012 51.81167 6.2 6.2 721945.56000 5744996.10000
2006-06-21 16:13:31 -5.78455 51.81492 6.2 6.2 721624.44000 5745343.80000
2006-06-21 16:15:42 -5.80296 51.82131 6.2 6.2 720324.79000 5745997.80000
2006-06-21 16:18:00 -5.82177 51.82815 6.2 6.2 718995.58000 5746702.40000
2006-06-21 16:20:25 -5.84190 51.83592 6.2 6.2 717570.85000 5747505.00000
2006-06-21 16:22:42 -5.86282 51.83992 6.2 6.2 716111.21000 5747888.20000
2006-06-21 16:25:02 -5.88449 51.84056 6.2 6.2 714615.50000 5747895.30000
2006-06-21 16:27:25 -5.90739 51.84269 6.2 6.2 713028.46000 5748064.10000
2006-06-21 16:29:37 -5.92828 51.84313 6.2 6.2 711587.50000 5748052.60000
2006-06-21 16:32:01 -5.95060 51.84389 6.2 6.2 710047.08000 5748072.50000
2006-06-21 16:56:55 -6.17119 51.87331 6.2 6.2 694728.69000 5750729.80000
2006-06-21 16:59:07 -6.18950 51.87581 6.2 6.2 693457.32000 5750959.20000
2006-06-21 17:01:18 -6.20822 51.87589 6.2 6.2 692168.53000 5750918.60000
2006-06-21 17:03:31 -6.22717 51.87621 6.2 6.2 690863.23000 5750904.90000
2006-06-21 17:05:57 -6.24819 51.87824 6.2 6.2 689408.33000 5751075.00000
2006-06-21 17:08:06 -6.26652 51.88070 6.2 6.2 688136.15000 5751301.30000
2006-06-21 17:10:24 -6.28705 51.88118 6.2 6.2 686721.86000 5751302.10000
2006-06-21 17:30:53 -6.45187 51.88101 6.2 6.2 675380.21000 5750873.30000
2006-06-21 17:33:01 -6.45097 51.88106 6.2 6.2 675441.74000 5750880.30000
2006-06-21 17:35:12 -6.45016 51.88134 6.2 6.2 675496.73000 5750913.60000
2006-06-21 17:37:36 -6.44931 51.88168 6.2 6.2 675554.00000 5750953.90000
2006-06-21 17:40:01 -6.45036 51.88182 6.2 6.2 675481.09000 5750966.70000
2006-06-21 17:42:25 -6.46744 51.87689 6.2 6.2 674324.60000 5750376.90000
2006-06-21 17:47:04 -6.47118 51.86575 6.2 6.2 674110.57000 5749129.60000
2006-06-21 17:49:42 -6.47089 51.85771 6.2 6.2 674161.22000 5748236.80000
2006-06-21 17:52:00 -6.47270 51.86890 6.2 6.2 673993.44000 5749475.90000
2006-06-21 17:54:15 -6.48392 51.87681 6.2 6.2 673191.15000 5750328.90000
2006-06-21 17:57:24 -6.48532 51.88458 6.2 6.2 673064.58000 5751190.20000
2006-06-21 17:59:38 -6.48502 51.88476 6.2 6.2 673084.53000 5751210.90000
2006-06-21 18:01:48 -6.48431 51.88493 6.2 6.2 673132.65000 5751230.60000
2006-06-21 18:04:00 -6.48373 51.88517 6.2 6.2 673172.08000 5751259.30000
2006-06-21 18:06:37 -6.48307 51.88531 6.2 6.2 673216.72000 5751276.60000
2006-06-21 18:08:48 -6.48249 51.88548 6.2 6.2 673255.87000 5751296.70000
2006-06-21 18:11:37 -6.48168 51.88556 6.2 6.2 673311.19000 5751307.30000
2006-06-21 18:13:48 -6.48085 51.88569 6.2 6.2 673368.13000 5751324.30000
2006-06-21 18:16:36 -6.48000 51.88609 6.2 6.2 673425.07000 5751370.80000
2006-06-21 18:18:48 -6.47963 51.88632 6.2 6.2 673449.43000 5751396.90000
2006-06-21 18:21:37 -6.47898 51.88742 6.2 6.2 673489.80000 5751521.00000
2006-06-21 18:24:42 -6.47843 51.88777 6.2 6.2 673526.54000 5751560.80000
2006-06-21 18:27:44 -6.47785 51.88806 6.2 6.2 673565.54000 5751595.00000
2006-06-21 18:31:54 -6.47595 51.88390 6.2 6.2 673711.97000 5751136.90000
2006-06-21 18:34:13 -6.47883 51.88695 6.2 6.2 673501.81000 5751469.10000
2006-06-21 18:36:43 -6.48925 51.89100 6.2 6.2 672769.77000 5751894.20000
2006-06-21 18:39:07 -6.48853 51.89066 6.2 6.2 672820.50000 5751858.10000
2006-06-21 18:41:24 -6.48806 51.89093 6.2 6.2 672851.47000 5751888.90000
2006-06-21 18:43:43 -6.48760 51.89111 6.2 6.2 672882.66000 5751910.00000
2006-06-21 18:46:14 -6.50280 51.89640 6.2 6.2 671816.44000 5752462.80000
2006-06-21 18:48:24 -6.51535 51.90130 6.2 6.2 670934.59000 5752978.30000
2006-06-21 18:50:43 -6.53180 51.90659 6.2 6.2 669783.44000 5753528.10000
2006-06-21 18:52:54 -6.54770 51.91159 6.2 6.2 668670.70000 5754046.20000
2006-06-21 18:55:07 -6.56365 51.91854 6.2 6.2 667548.36000 5754782.80000
2006-06-21 18:57:43 -6.58125 51.92617 6.2 6.2 666310.08000 5755590.80000
2006-06-21 19:00:19 -6.59594 51.92229 6.2 6.2 665313.97000 5755125.60000
2006-06-21 19:03:32 -6.61737 51.92219 6.2 6.2 663841.38000 5755066.00000
2006-06-21 19:06:07 -6.63860 51.92683 6.2 6.2 662364.38000 5755534.10000
2006-06-21 19:08:50 -6.65449 51.93002 6.2 6.2 661260.75000 5755853.80000
2006-06-21 19:11:00 -6.66988 51.92770 6.2 6.2 660211.40000 5755561.50000
2006-06-21 19:19:55 -6.73595 51.92041 6.2 6.2 655694.34000 5754607.40000
2006-06-21 19:22:07 -6.75289 51.92037 6.2 6.2 654529.67000 5754567.40000
2006-06-21 19:24:18 -6.76489 51.91180 6.2 6.2 653733.38000 5753589.00000
2006-06-21 19:26:49 -6.77896 51.91149 6.2 6.2 652767.36000 5753525.10000
2006-06-21 19:29:00 -6.79281 51.91160 6.2 6.2 651814.25000 5753508.20000
2006-06-21 19:31:49 -6.80859 51.90841 6.2 6.2 650739.36000 5753120.10000
2006-06-21 19:34:13 -6.81951 51.90515 6.2 6.2 649999.50000 5752735.00000
2006-06-21 19:37:31 -6.83476 51.90308 6.2 6.2 648957.17000 5752473.50000
2006-06-21 19:39:55 -6.84750 51.90275 6.2 6.2 648081.77000 5752411.50000
2006-06-21 19:42:22 -6.86246 51.90572 6.2 6.2 647043.59000 5752711.30000
2006-06-21 19:44:32 -6.87491 51.90647 6.2 6.2 646184.81000 5752769.00000
2006-06-21 19:47:01 -6.88648 51.89641 6.2 6.2 645421.25000 5751627.70000
2006-06-21 19:51:26 -6.89770 51.89913 6.2 6.2 644640.49000 5751907.60000
2006-06-21 19:53:36 -6.90755 51.90497 6.2 6.2 643943.96000 5752537.70000
2006-06-21 19:55:50 -6.92119 51.90624 6.2 6.2 643001.95000 5752651.50000
2006-06-21 19:58:00 -6.93272 51.90531 6.2 6.2 642212.04000 5752525.70000
2006-06-21 20:00:14 -6.94620 51.91235 6.2 6.2 641262.59000 5753283.00000
2006-06-21 20:02:31 -6.95391 51.92287 6.2 6.2 640699.10000 5754437.90000
2006-06-21 20:04:55 -6.96821 51.92892 6.2 6.2 639697.30000 5755083.10000
2006-06-21 20:07:07 -6.98130 51.93282 6.2 6.2 638785.69000 5755491.50000
2006-06-21 20:09:19 -6.99558 51.93392 6.2 6.2 637800.23000 5755586.10000
2006-06-21 20:11:30 -7.00972 51.93806 6.2 6.2 636815.72000 5756020.60000
2006-06-21 20:13:43 -7.02412 51.94170 6.2 6.2 635814.93000 5756398.40000
2006-06-21 20:15:56 -7.03805 51.94504 6.2 6.2 634847.64000 5756743.40000
2006-06-21 20:18:19 -7.05357 51.94017 6.2 6.2 633795.50000 5756173.70000
2006-06-21 20:20:49 -7.07035 51.93468 6.2 6.2 632658.47000 5755532.50000
2006-06-21 20:23:19 -7.08226 51.93128 6.2 6.2 631849.87000 5755132.10000
2006-06-21 20:25:31 -7.09397 51.93145 6.2 6.2 631044.01000 5755129.70000
2006-06-21 20:27:49 -7.10594 51.93418 6.2 6.2 630213.31000 5755412.60000
2006-06-21 20:30:07 -7.11838 51.93647 6.2 6.2 629351.69000 5755644.60000
2006-06-21 20:32:20 -7.13231 51.93359 6.2 6.2 628402.16000 5755299.60000
2006-06-21 20:34:43 -7.14559 51.92439 6.2 6.2 627515.21000 5754252.80000
2006-06-21 20:37:01 -7.15992 51.91804 6.2 6.2 626547.66000 5753521.60000
2006-06-21 20:39:20 -7.17634 51.91853 6.2 6.2 625417.35000 5753548.20000
2006-06-21 20:41:30 -7.19056 51.91872 6.2 6.2 624438.97000 5753544.40000
2006-06-21 20:43:49 -7.20412 51.91658 6.2 6.2 623512.48000 5753283.70000
2006-06-21 20:46:07 -7.21879 51.91735 6.2 6.2 622501.41000 5753344.50000
2006-06-21 20:48:19 -7.23236 51.91628 6.2 6.2 621571.44000 5753203.20000
2006-06-21 20:50:37 -7.24680 51.91654 6.2 6.2 620577.46000 5753208.20000
2006-06-21 20:52:48 -7.26108 51.91442 6.2 6.2 619601.28000 5752948.50000
2006-06-21 20:55:01 -7.27334 51.91375 6.2 6.2 618759.89000 5752853.70000
2006-06-21 20:57:14 -7.28510 51.91937 6.2 6.2 617936.13000 5753459.80000
2006-06-21 20:59:25 -7.29653 51.92360 6.2 6.2 617138.78000 5753911.50000
2006-06-21 21:01:36 -7.30587 51.92531 6.2 6.2 616492.58000 5754087.30000
2006-06-21 21:03:56 -7.32102 51.92161 6.2 6.2 615459.95000 5753651.10000
2006-06-21 21:06:06 -7.33423 51.92266 6.2 6.2 614549.49000 5753746.70000
2006-06-21 21:08:18 -7.34527 51.92961 6.2 6.2 613772.55000 5754502.50000
2006-06-21 21:10:37 -7.36041 51.93295 6.2 6.2 612723.16000 5754850.90000
2006-06-21 21:16:36 -7.40056 51.94133 6.2 6.2 609942.27000 5755721.40000
2006-06-21 21:18:49 -7.40028 51.94125 6.2 6.2 609962.29000 5755712.40000
2006-06-21 21:21:01 -7.40044 51.94117 6.2 6.2 609951.37000 5755703.60000
2006-06-21 21:23:25 -7.40046 51.94107 6.2 6.2 609949.79000 5755692.10000
2006-06-21 21:25:37 -7.40008 51.94118 6.2 6.2 609976.09000 5755705.00000
2006-06-21 21:27:55 -7.40016 51.94100 6.2 6.2 609971.02000 5755685.30000
2006-06-21 21:31:25 -7.40075 51.94086 6.2 6.2 609930.70000 5755669.00000
2006-06-21 21:34:33 -7.40036 51.94086 6.2 6.2 609957.63000 5755668.90000
2006-06-21 21:37:55 -7.40036 51.94075 6.2 6.2 609957.56000 5755656.40000
Dr Samantha Patrick
EU INTERREG Post Doc
Marine Biology & Ecology Research Centre
University of Plymouth
Plymouth
PL4 8AA
T: 01752 584699
M: 07740472719
-----Original Message-----
From: Clément Calenge [mailto:clement.calenge at oncfs.gouv.fr]
Sent: 21 April 2010 11:18
To: Samantha Patrick
Cc: r-sig-ecology at r-project.org
Subject: Re: [R-sig-eco] FPT and Adehabitat
Hard to say without any reproducible example... could you post an
example (minimum dataset + R code)?
Best regards,
Clément Calenge
Samantha Patrick wrote:
> I am calculating First Passage Time for GPS movements. The code all runs fine and R recognises that an individual, for example, has 139 relocations. However when I then view the FPT output there are 295 data points. I have checked back and the data file, the imported data and the number of time points all equal 139. In the help it says that the FPT output is a data frame per individual with a row for each relocation so I cannot understand why it is outputting so many rows. This happens for many individuals but there doesn't not seem to be any pattern in the number of output rows and occurs if I run individuals separately. Has anyone ever come across this or have any ideas?
>
> Many Thanks
>
> Sam
>
>
> Dr Samantha Patrick
> EU INTERREG Post Doc
> Marine Biology & Ecology Research Centre
> University of Plymouth
> Plymouth
> PL4 8AA
>
> T: 01752 584699
> M: 07740472719
>
>
> [[alternative HTML version deleted]]
>
> _______________________________________________
> R-sig-ecology mailing list
> R-sig-ecology at r-project.org
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>
>
--
Clément CALENGE
Cellule d'appui à l'analyse de données
Office national de la chasse et de la faune sauvage
Saint Benoist - 78610 Auffargis
tel. (33) 01.30.46.54.14
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