ANGSD: Analysis of next generation Sequencing Data
Latest tar.gz version is (0.938/0.939 on github), see Change_log for changes, and download it here.
User contributions for Thorfinn
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4 December 2015
- 15:0715:07, 4 December 2015 diff hist −130 ANGSD →Synopsis current
- 14:5814:58, 4 December 2015 diff hist +1 Quick Start No edit summary current
- 14:5814:58, 4 December 2015 diff hist −1 Quick Start No edit summary
- 14:5614:56, 4 December 2015 diff hist +72 Major Minor →Brief Overview current
- 14:5314:53, 4 December 2015 diff hist +1,140 RealSFS →Brief overview
- 14:5214:52, 4 December 2015 diff hist −129 RealSFS No edit summary
- 14:5114:51, 4 December 2015 diff hist 0 Input →options
- 14:4514:45, 4 December 2015 diff hist +73 Input →Pileup files
- 10:4210:42, 4 December 2015 diff hist +16 Input →Genotype Likelihood Files
- 10:4010:40, 4 December 2015 diff hist +1 Input →Genotype Likelihood Files
- 10:3610:36, 4 December 2015 diff hist +35 Input →glf
- 10:3610:36, 4 December 2015 diff hist +54 Input →glf
- 10:2810:28, 4 December 2015 diff hist +30 Input →glf
- 10:1010:10, 4 December 2015 diff hist +428 Input →Brief Overview
- 10:0510:05, 4 December 2015 diff hist −1 ANGSD No edit summary
- 10:0510:05, 4 December 2015 diff hist −2 ANGSD No edit summary
- 10:0510:05, 4 December 2015 diff hist −217 ANGSD No edit summary
- 10:0410:04, 4 December 2015 diff hist −4 ANGSD No edit summary
- 10:0110:01, 4 December 2015 diff hist 0 Input No edit summary
26 November 2015
- 14:2214:22, 26 November 2015 diff hist +252 Error estimation →Output
23 November 2015
- 13:2613:26, 23 November 2015 diff hist +495 Fst →Sliding Window output
20 November 2015
- 14:2914:29, 20 November 2015 diff hist −11 SFS Estimation No edit summary
- 14:2914:29, 20 November 2015 diff hist +354 SFS Estimation →How to plot
- 04:1804:18, 20 November 2015 diff hist 0 Installation No edit summary
- 04:1604:16, 20 November 2015 diff hist +60 Change log →Latests
- 04:1604:16, 20 November 2015 diff hist 0 MediaWiki:Sitenotice No edit summary
- 03:5003:50, 20 November 2015 diff hist +53 SFS Estimation No edit summary
16 November 2015
- 16:0016:00, 16 November 2015 diff hist +1 Sites →Bedfiles? current
- 15:0415:04, 16 November 2015 diff hist +99 Abbababa No edit summary
14 November 2015
- 03:2803:28, 14 November 2015 diff hist +84 Installation No edit summary
- 03:1303:13, 14 November 2015 diff hist 0 Installation →Install from github
- 03:1203:12, 14 November 2015 diff hist 0 Installation →Unix
- 02:5302:53, 14 November 2015 diff hist +41 Installation →Install from github
- 02:4902:49, 14 November 2015 diff hist +38 Installation →Unix
7 November 2015
- 01:5501:55, 7 November 2015 diff hist −249 ANGSD No edit summary
- 01:5501:55, 7 November 2015 diff hist +249 ANGSD No edit summary
19 October 2015
- 18:5218:52, 19 October 2015 diff hist −79 Thetas,Tajima,Neutrality tests →Unknown ancestral state (folded sfs)
- 18:5218:52, 19 October 2015 diff hist +1 Thetas,Tajima,Neutrality tests →Step 1: Finding a 'global estimate' of the SFS
- 18:5118:51, 19 October 2015 diff hist +1 Thetas,Tajima,Neutrality tests updatated the examples for latest version of realSFS, thanks kebi
- 18:5018:50, 19 October 2015 diff hist +1 Thetas,Tajima,Neutrality tests →Full command list for below examples
13 October 2015
- 01:0601:06, 13 October 2015 diff hist +162 Fst No edit summary
8 October 2015
- 18:3818:38, 8 October 2015 diff hist −4 Pbs No edit summary current
31 August 2015
- 10:0810:08, 31 August 2015 diff hist +149 Citing angsd →Contamination current
24 August 2015
- 14:1714:17, 24 August 2015 diff hist 0 Input →Brief Overview
21 August 2015
30 July 2015
- 19:2219:22, 30 July 2015 diff hist +65 Fst No edit summary
- 19:2219:22, 30 July 2015 diff hist +9 Fst No edit summary
- 19:2119:21, 30 July 2015 diff hist +244 Fst No edit summary
- 16:4016:40, 30 July 2015 diff hist 0 Installation →Unix
- 16:4016:40, 30 July 2015 diff hist 0 Installation →Download and Installation
- 16:3816:38, 30 July 2015 diff hist −102 MediaWiki:Sitenotice No edit summary
- 16:2716:27, 30 July 2015 diff hist +6,807 N Fst correctness Created page with "= 3 Populations simulated data= <pre> msms -ms 44 10 -t 930 -r 400 -I 3 12 14 18 -n 1 1.682020 -n 2 3.736830 -n 3 7.292050 -eg 0 2 116.010723 -eg 0 3 160.246047 -ma x 0.881098..." current
- 16:2616:26, 30 July 2015 diff hist −6,809 Fst No edit summary
- 16:2216:22, 30 July 2015 diff hist +242 N PCA Created page with "Matteo Fumagalli has been working on methods for doing PCA/Covariance based on ANGSD output files. The main documentation for this is found here: https://github.com/mfumagall..."
- 16:2116:21, 30 July 2015 diff hist −24 Fst PCA No edit summary current
- 16:2116:21, 30 July 2015 diff hist +86 Fst PCA No edit summary
- 16:2016:20, 30 July 2015 diff hist −10,708 Fst PCA No edit summary
- 16:1916:19, 30 July 2015 diff hist +3 MediaWiki:Sidebar No edit summary
- 16:1716:17, 30 July 2015 diff hist −2 Fst →3 Populations simulated data
- 16:1616:16, 30 July 2015 diff hist −2 Fst →Sliding Window output
- 16:1616:16, 30 July 2015 diff hist −2 Fst →3 Populations real data
- 16:1616:16, 30 July 2015 diff hist −421 Fst No edit summary
- 16:1416:14, 30 July 2015 diff hist −336 Fst No edit summary
- 16:1416:14, 30 July 2015 diff hist +11,331 N Fst Created page with "Matteo Fumagalli has been working on methods to estimate Fst and doing PCA/Covariance based on ANGSD output files. The main documentation for this is found here: https://gith..."
- 15:5615:56, 30 July 2015 diff hist +247 Fst PCA No edit summary
- 15:5415:54, 30 July 2015 diff hist +111 N Pbs Created page with "See Fst PCA for examples on how to obtain the pbs statistics in the fst output if you supply 3 populations."
- 15:5315:53, 30 July 2015 diff hist +44 MediaWiki:Sidebar No edit summary
- 15:5115:51, 30 July 2015 diff hist +414 Fst PCA →Sliding Window output
- 15:5015:50, 30 July 2015 diff hist −220 Fst PCA →3 Populations real data
- 15:5015:50, 30 July 2015 diff hist +374 Fst PCA →3 Populations real data
- 15:4815:48, 30 July 2015 diff hist +98 Fst PCA →3 Populations real data
- 14:4514:45, 30 July 2015 diff hist −2 Fst PCA →3 Populations real data
- 14:4214:42, 30 July 2015 diff hist −3 Fst PCA →3 Populations real data
- 14:4114:41, 30 July 2015 diff hist −3 Fst PCA →3 Populations real data
29 July 2015
- 16:3416:34, 29 July 2015 diff hist +49 SFS Estimation →Options
28 July 2015
- 15:4715:47, 28 July 2015 diff hist −4 Genotype Likelihoods →SYK genotype likelihoods
- 15:4615:46, 28 July 2015 diff hist +1,652 Genotype Likelihoods No edit summary
22 July 2015
- 18:5718:57, 22 July 2015 diff hist +3 RealSFS No edit summary
- 18:5718:57, 22 July 2015 diff hist −2 RealSFS No edit summary
- 18:5618:56, 22 July 2015 diff hist +68 RealSFS No edit summary
- 18:5218:52, 22 July 2015 diff hist +11 RealSFS →2dsfs
- 18:5218:52, 22 July 2015 diff hist +11 RealSFS →1d SFS
- 18:5218:52, 22 July 2015 diff hist +295 RealSFS →Printing the SAF
- 18:5018:50, 22 July 2015 diff hist +178 RealSFS →Brief overview
- 18:4618:46, 22 July 2015 diff hist +157 RealSFS No edit summary
- 18:4318:43, 22 July 2015 diff hist +2 SFS Estimation →Using NGStools
- 18:4318:43, 22 July 2015 diff hist +110 SFS Estimation →safv3 comparison
- 18:4218:42, 22 July 2015 diff hist +222 RealSFS →Using NGStools/NGSpopgen
- 18:3918:39, 22 July 2015 diff hist +288 RealSFS →Using NGStools
- 18:3518:35, 22 July 2015 diff hist +18 RealSFS →-nSites
9 July 2015
- 15:4815:48, 9 July 2015 diff hist +59 SFS Estimation →Brief Overview
- 15:4715:47, 9 July 2015 diff hist +235 RealSFS →NB
20 June 2015
- 10:2610:26, 20 June 2015 diff hist +26 MediaWiki:Sidebar No edit summary
- 10:2310:23, 20 June 2015 diff hist +84 N NgsRelate Created page with "ngsrelate has its very own website http://www.popgen.dk/software/index.php/NgsRelate" current
18 June 2015
- 15:0915:09, 18 June 2015 diff hist +14 MediaWiki:Sitenotice No edit summary
- 15:0615:06, 18 June 2015 diff hist +403 Installation Undo revision 2514 by Thorfinn (talk)
- 14:4914:49, 18 June 2015 diff hist +1 MediaWiki:Sitenotice No edit summary
- 14:4914:49, 18 June 2015 diff hist +87 MediaWiki:Sitenotice No edit summary
- 12:2812:28, 18 June 2015 diff hist −403 Installation No edit summary
17 June 2015
- 17:4217:42, 17 June 2015 diff hist +2 Fst PCA →Sliding Window output