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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5 February 2015
- 23:2923:29, 5 February 2015 diff hist +98 Contamination No edit summary
19 December 2014
- 18:2818:28, 19 December 2014 diff hist 0 Installation →Unix
- 18:2818:28, 19 December 2014 diff hist 0 Installation No edit summary
- 18:2718:27, 19 December 2014 diff hist +60 Change log No edit summary
- 18:2718:27, 19 December 2014 diff hist 0 MediaWiki:Sitenotice No edit summary
- 11:4711:47, 19 December 2014 diff hist +141 Input →VCF files
- 11:4711:47, 19 December 2014 diff hist +237 Input →VCF files
- 11:4411:44, 19 December 2014 diff hist +467 Input →Genotype Probability Files
- 11:3811:38, 19 December 2014 diff hist +50 Input No edit summary
17 December 2014
- 21:5921:59, 17 December 2014 diff hist +182 SFS Estimation →Options
- 21:5021:50, 17 December 2014 diff hist +74 SFS Estimation →-doSaf 2
- 21:4521:45, 17 December 2014 diff hist +152 SFS Estimation →-doSaf 2
- 21:2321:23, 17 December 2014 diff hist +344 SFS Estimation →-doSaf 2
- 21:1421:14, 17 December 2014 diff hist +5 SFS Estimation →-doSaf 2
- 21:1221:12, 17 December 2014 diff hist −210 SFS Estimation →-doSaf 2
- 21:1021:10, 17 December 2014 diff hist +1,585 SFS Estimation →-doSaf 1
8 December 2014
- 17:0917:09, 8 December 2014 diff hist +14 SFS Estimation No edit summary
- 17:0817:08, 8 December 2014 diff hist 0 SFS Estimation No edit summary
- 17:0817:08, 8 December 2014 diff hist 0 SFS Estimation No edit summary
- 17:0817:08, 8 December 2014 diff hist +313 SFS Estimation No edit summary
- 11:2511:25, 8 December 2014 diff hist +685 SFS Estimation →Validation
- 11:2311:23, 8 December 2014 diff hist +13 SFS Estimation →Which genotype likelihood model should I choose ?
26 November 2014
- 10:5110:51, 26 November 2014 diff hist −174 Citing angsd No edit summary
- 10:5110:51, 26 November 2014 diff hist +911 Citing angsd No edit summary
- 10:4110:41, 26 November 2014 diff hist +56 MediaWiki:Sitenotice No edit summary
4 November 2014
- 20:3820:38, 4 November 2014 diff hist +16 Sites →Bedfiles?
- 20:3720:37, 4 November 2014 diff hist +290 Sites →Requirements
- 13:0413:04, 4 November 2014 diff hist −736 Sites →Requirements
- 13:0413:04, 4 November 2014 diff hist +82 Sites →Internal representation
- 13:0313:03, 4 November 2014 diff hist +131 Sites →Example of filter file for single sites
- 13:0213:02, 4 November 2014 diff hist −10 Sites →Example of filterfile
- 13:0213:02, 4 November 2014 diff hist +83 Sites →Details
- 12:5512:55, 4 November 2014 diff hist +45 Sites →Details
- 12:4812:48, 4 November 2014 diff hist +157 Sites →Brief overview
- 12:3912:39, 4 November 2014 diff hist +25 Sites No edit summary
- 12:3712:37, 4 November 2014 diff hist +21 Sites →Brief overview
- 12:2512:25, 4 November 2014 diff hist 0 MediaWiki:Sitenotice No edit summary
- 12:2312:23, 4 November 2014 diff hist 0 Installation No edit summary
- 12:2112:21, 4 November 2014 diff hist +61 Change log No edit summary
3 November 2014
2 November 2014
- 10:5910:59, 2 November 2014 diff hist +112 Fasta No edit summary
- 01:4101:41, 2 November 2014 diff hist +640 Sites No edit summary
- 01:3501:35, 2 November 2014 diff hist −5 Sites No edit summary
- 01:3501:35, 2 November 2014 diff hist +101 Sites No edit summary
31 October 2014
- 18:4918:49, 31 October 2014 diff hist −4 RealSFS →Brief overview
20 October 2014
- 00:2400:24, 20 October 2014 diff hist +17 Contamination No edit summary
1 October 2014
- 19:3119:31, 1 October 2014 diff hist −165 Genotype Likelihoods No edit summary
9 September 2014
- 20:0620:06, 9 September 2014 diff hist +36 2d SFS Estimation →Example
8 September 2014
- 23:2223:22, 8 September 2014 diff hist +12 2d SFS Estimation →Example
28 August 2014
- 16:3816:38, 28 August 2014 diff hist −210 Input →glf
- 16:3716:37, 28 August 2014 diff hist −1 Input →glf
25 August 2014
- 22:5922:59, 25 August 2014 diff hist −140 Change log →Latest
- 22:5522:55, 25 August 2014 diff hist 0 MediaWiki:Sitenotice No edit summary
- 22:5422:54, 25 August 2014 diff hist +7 Installation No edit summary
19 August 2014
- 18:0918:09, 19 August 2014 diff hist +39 Contamination No edit summary
13 August 2014
- 19:4919:49, 13 August 2014 diff hist −18 MsToGlf →Two populations
- 19:1919:19, 13 August 2014 diff hist +7 2d SFS Estimation →Example
- 19:1819:18, 13 August 2014 diff hist +26 MsToGlf →Two populations
12 August 2014
- 14:4914:49, 12 August 2014 diff hist +16 2d SFS Estimation No edit summary
- 14:2914:29, 12 August 2014 diff hist +11 2d SFS Estimation →Example
- 12:1112:11, 12 August 2014 diff hist 0 Glcomparison No edit summary
- 12:1012:10, 12 August 2014 diff hist +259 Genotype Likelihoods →Simple Text Format
- 12:1012:10, 12 August 2014 diff hist +2 SFS Estimation →Which genotype likelihood model should I choose
- 12:1012:10, 12 August 2014 diff hist +141 SFS Estimation →Which genotype likelihood model should I choose
- 12:0712:07, 12 August 2014 diff hist +66 SFS Estimation →Which genotype likelihood model should I choose
- 12:0612:06, 12 August 2014 diff hist +50 SFS Estimation →How to plot
- 12:0512:05, 12 August 2014 diff hist +33 Glcomparison No edit summary
- 12:0412:04, 12 August 2014 diff hist +550 Glcomparison No edit summary
- 12:0312:03, 12 August 2014 diff hist +420 Glcomparison No edit summary
- 11:5711:57, 12 August 2014 diff hist +1,452 Glcomparison No edit summary
- 11:5411:54, 12 August 2014 diff hist −63 Glcomparison No edit summary
- 11:5311:53, 12 August 2014 diff hist +1,004 N Glcomparison Created page with "For some analysis the choice of GL model will make a huge impact, this is shown in the example where we estimate the sfs using '''-GL 1''' and '''-GL 2''', for two list of BAM..."
- 11:3711:37, 12 August 2014 diff hist 0 N File:Glcomparison.png No edit summary current
1 August 2014
- 12:0212:02, 1 August 2014 diff hist +64 Contamination No edit summary
- 11:5911:59, 1 August 2014 diff hist +12 Contamination No edit summary
- 11:5811:58, 1 August 2014 diff hist +117 Contamination No edit summary
- 11:5711:57, 1 August 2014 diff hist +9 Contamination No edit summary
31 July 2014
- 11:5511:55, 31 July 2014 diff hist −14 Misc example No edit summary current
- 11:5511:55, 31 July 2014 diff hist +18 MsToGlf →Two populations
- 11:5411:54, 31 July 2014 diff hist +25 MsToGlf →Two populations
- 11:5411:54, 31 July 2014 diff hist +21 MsToGlf →Standard neutral model
22 July 2014
- 21:0421:04, 22 July 2014 diff hist +7 Quick Start →Ancestral fasta file for hg19
- 21:0221:02, 22 July 2014 diff hist +3 Quick Start →Ancestral fasta file for hg19
- 20:4920:49, 22 July 2014 diff hist +163 Quick Start →Ancestral fasta file for hg19
20 July 2014
- 09:5809:58, 20 July 2014 diff hist +61 Change log No edit summary
- 09:5509:55, 20 July 2014 diff hist 0 Installation →Unix
- 09:5509:55, 20 July 2014 diff hist 0 Installation No edit summary
- 09:5509:55, 20 July 2014 diff hist 0 MediaWiki:Sitenotice No edit summary
17 July 2014
- 19:5319:53, 17 July 2014 diff hist +49 Bugs No edit summary
11 July 2014
- 09:1609:16, 11 July 2014 diff hist +47 N Supersim Created page with "Small program to simulate genotype likelihoods."
3 July 2014
- 13:5813:58, 3 July 2014 diff hist +89 RealSFS →Brief overview
- 09:4109:41, 3 July 2014 diff hist +83 Installation →Download
- 09:4009:40, 3 July 2014 diff hist +60 ANGSD No edit summary
- 09:3909:39, 3 July 2014 diff hist −31 MediaWiki:Sitenotice No edit summary
- 09:3709:37, 3 July 2014 diff hist +31 MediaWiki:Sitenotice No edit summary
30 June 2014
- 14:1514:15, 30 June 2014 diff hist +4 Thetas,Tajima,Neutrality tests →Step 3a: Estimate Tajimas D and other statistics
- 14:1514:15, 30 June 2014 diff hist +2 Thetas,Tajima,Neutrality tests →Step 1: Finding a 'global estimate' of the SFS
- 14:1514:15, 30 June 2014 diff hist +8 Thetas,Tajima,Neutrality tests →Full command list for below examples
- 14:1414:14, 30 June 2014 diff hist +114 Quick Start →Estimating thetas, neutrality test statistics
- 14:1214:12, 30 June 2014 diff hist +48 Quick Start →Finding the SFS