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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27 June 2017
- 21:2121:21, 27 June 2017 diff hist +134 SnpFilters →Example run with hetfilter
- 21:2021:20, 27 June 2017 diff hist +32 SnpFilters No edit summary
- 21:0521:05, 27 June 2017 diff hist +128 SnpFilters No edit summary
22 June 2017
- 18:2118:21, 22 June 2017 diff hist +46 Input →Arguments
- 17:5817:58, 22 June 2017 diff hist 0 Installation No edit summary
- 17:5617:56, 22 June 2017 diff hist +60 Change log No edit summary
- 17:5617:56, 22 June 2017 diff hist 0 MediaWiki:Sitenotice No edit summary
- 17:5317:53, 22 June 2017 diff hist −10 Thorfinn →Make a new github version to put on github
- 17:5217:52, 22 June 2017 diff hist +119 Thorfinn →Make a new github version to put on github
- 17:5017:50, 22 June 2017 diff hist 0 Thorfinn →Make a new github version to put on github
- 17:5017:50, 22 June 2017 diff hist +55 Thorfinn →Make a new github version to put on github
- 17:4917:49, 22 June 2017 diff hist +9 Thorfinn →Make a new github version to put on github
- 17:4817:48, 22 June 2017 diff hist −53 Thorfinn →Make a new github version to put on github
- 17:4717:47, 22 June 2017 diff hist +4 Thorfinn →Make a combined angsd htslib to put on wiki download
- 17:3217:32, 22 June 2017 diff hist +6 Thorfinn →Make a combined angsd htslib to put on wiki download
- 17:3117:31, 22 June 2017 diff hist −68 Thorfinn →Make a combined angsd htslib to put on wiki download
- 17:3017:30, 22 June 2017 diff hist −3 Thorfinn →Make a combined angsd htslib to put on wiki download
- 17:3017:30, 22 June 2017 diff hist +103 Thorfinn →Make a combined angsd htslib to put on wiki download
31 May 2017
- 16:1716:17, 31 May 2017 diff hist +18 Input →Arguments
29 May 2017
8 February 2017
- 18:5918:59, 8 February 2017 diff hist +1 Thetas,Tajima,Neutrality tests →.thetas.gz.pestPG
- 18:5818:58, 8 February 2017 diff hist +64 Thetas,Tajima,Neutrality tests →Example
- 18:5718:57, 8 February 2017 diff hist +1 Thetas,Tajima,Neutrality tests →./thetaStat print angsdput.thetas.gz
- 18:5618:56, 8 February 2017 diff hist +42 Thetas,Tajima,Neutrality tests →Example Output
- 18:5518:55, 8 February 2017 diff hist +1 Thetas,Tajima,Neutrality tests →Step 3b: Sliding Window example
- 18:5418:54, 8 February 2017 diff hist +2 Thetas,Tajima,Neutrality tests →Step 3a: Estimate Tajimas D and other statistics
- 18:5418:54, 8 February 2017 diff hist +1 Thetas,Tajima,Neutrality tests →Full command list for below examples
- 18:5318:53, 8 February 2017 diff hist +934 ThetaStat No edit summary
- 18:5018:50, 8 February 2017 diff hist −112 Thetas,Tajima,Neutrality tests →Unknown ancestral state (folded sfs)
- 18:4918:49, 8 February 2017 diff hist −14 Thetas,Tajima,Neutrality tests →Step 3b: Sliding Window example
- 18:4818:48, 8 February 2017 diff hist −157 Thetas,Tajima,Neutrality tests →Step 3a: Estimate Tajimas D and other statistics
- 18:4718:47, 8 February 2017 diff hist +6 Thetas,Tajima,Neutrality tests →Step 3a: Estimate Tajimas D and other statistics
- 18:4518:45, 8 February 2017 diff hist −101 Thetas,Tajima,Neutrality tests →Step 3a: Estimate Tajimas D and other statistics
- 18:4518:45, 8 February 2017 diff hist −35 Thetas,Tajima,Neutrality tests →Step 2: Calculate the thetas for each site
- 18:4418:44, 8 February 2017 diff hist −86 Thetas,Tajima,Neutrality tests →Step 2: Calculate the thetas for each site
- 18:4118:41, 8 February 2017 diff hist +145 Thetas,Tajima,Neutrality tests →Step 2: Calculate the thetas for each site
- 18:3918:39, 8 February 2017 diff hist −57 Thetas,Tajima,Neutrality tests →Full command list for below examples
- 18:3918:39, 8 February 2017 diff hist +14 Thetas,Tajima,Neutrality tests →Example
- 18:3818:38, 8 February 2017 diff hist +13 Thetas,Tajima,Neutrality tests No edit summary
24 January 2017
- 13:5113:51, 24 January 2017 diff hist +80 Heterozygosity No edit summary current
- 13:4813:48, 24 January 2017 diff hist +2 Heterozygosity No edit summary
- 13:3113:31, 24 January 2017 diff hist +4 Heterozygosity No edit summary
- 13:3013:30, 24 January 2017 diff hist −2 Heterozygosity No edit summary
- 13:3013:30, 24 January 2017 diff hist +4 Heterozygosity No edit summary
23 January 2017
- 15:3915:39, 23 January 2017 diff hist 0 Installation No edit summary
- 15:3915:39, 23 January 2017 diff hist 0 MediaWiki:Sitenotice No edit summary
- 15:3715:37, 23 January 2017 diff hist +60 Change log →Latests
- 15:3115:31, 23 January 2017 diff hist +2 Thorfinn No edit summary
- 15:3015:30, 23 January 2017 diff hist +70 Thorfinn No edit summary
- 15:3015:30, 23 January 2017 diff hist +27 Thorfinn →Make a combined angsd htslib to put on wiki download
17 January 2017
- 17:3317:33, 17 January 2017 diff hist +6 PCA MDS →Options
12 January 2017
- 13:5713:57, 12 January 2017 diff hist +212 Error estimation →Error estimation using an outgroup and an error free individual current
10 January 2017
- 17:5717:57, 10 January 2017 diff hist +195 Heterozygosity →Local estimate
- 17:3317:33, 10 January 2017 diff hist +173 Heterozygosity No edit summary
- 17:3217:32, 10 January 2017 diff hist +111 Heterozygosity →Global estimate
- 17:3117:31, 10 January 2017 diff hist +2 Heterozygosity →Global estimate
- 17:3117:31, 10 January 2017 diff hist +459 Heterozygosity →Global estimate
- 17:2817:28, 10 January 2017 diff hist +147 Heterozygosity →Global estimate
- 17:2617:26, 10 January 2017 diff hist +101 Heterozygosity →Global estimate
- 17:2417:24, 10 January 2017 diff hist +92 Heterozygosity →Global estimate
- 17:2317:23, 10 January 2017 diff hist +267 Heterozygosity No edit summary
- 17:2217:22, 10 January 2017 diff hist +147 Heterozygosity No edit summary
- 17:1917:19, 10 January 2017 diff hist +63 N Heterozygosity Created page with "The heterozygosity is the proportion of heterozygous genotypes."
15 December 2016
- 13:4413:44, 15 December 2016 diff hist −326 HWE test No edit summary
- 11:1811:18, 15 December 2016 diff hist +411 Genotype calling →Examples
- 11:1311:13, 15 December 2016 diff hist +33 Genotype calling No edit summary
- 10:1510:15, 15 December 2016 diff hist +239 Fst →realSFS fst print
- 10:0410:04, 15 December 2016 diff hist +112 Fst →realSFS fst print
- 10:0210:02, 15 December 2016 diff hist +22 Fst →realSFS fst print
24 November 2016
- 19:5319:53, 24 November 2016 diff hist +110 HWE test No edit summary
- 19:4519:45, 24 November 2016 diff hist +77 SnpFilters No edit summary
- 19:4319:43, 24 November 2016 diff hist +25 SnpFilters No edit summary
- 19:1319:13, 24 November 2016 diff hist −80 SnpFilters No edit summary
- 19:1319:13, 24 November 2016 diff hist −11 SnpFilters No edit summary
15 November 2016
- 17:5717:57, 15 November 2016 diff hist −53 Installation No edit summary
- 17:5617:56, 15 November 2016 diff hist +277 Installation No edit summary
- 17:5417:54, 15 November 2016 diff hist 0 MediaWiki:Sitenotice No edit summary
- 17:5317:53, 15 November 2016 diff hist +36 Change log No edit summary
- 17:5217:52, 15 November 2016 diff hist +208 Thorfinn No edit summary
- 17:5117:51, 15 November 2016 diff hist +60 Change log No edit summary
- 17:4517:45, 15 November 2016 diff hist +318 Thorfinn No edit summary
- 17:4217:42, 15 November 2016 diff hist +176 Thorfinn No edit summary
- 17:4017:40, 15 November 2016 diff hist −38 Thorfinn No edit summary
- 17:3817:38, 15 November 2016 diff hist −1 Installation No edit summary
- 17:3617:36, 15 November 2016 diff hist 0 Installation No edit summary
- 17:3517:35, 15 November 2016 diff hist 0 Installation No edit summary
8 November 2016
- 22:3322:33, 8 November 2016 diff hist +232 Direct Ancestry No edit summary current
- 19:3319:33, 8 November 2016 diff hist +85 N Direct Ancestry Created page with "Based on the 2dsfs for two individuals it is possible to estimate the direct ancestry"
- 18:5918:59, 8 November 2016 diff hist 0 N File:AngsLogoTmp.png No edit summary current
7 October 2016
- 12:4812:48, 7 October 2016 diff hist +207 Fst No edit summary
6 September 2016
- 09:5309:53, 6 September 2016 diff hist +3 Input →Arguments
5 September 2016
- 17:3217:32, 5 September 2016 diff hist +12 Filters →Extra
26 August 2016
- 09:5209:52, 26 August 2016 diff hist 0 Thetas,Tajima,Neutrality tests No edit summary
- 09:5109:51, 26 August 2016 diff hist 0 Thetas,Tajima,Neutrality tests →Step 1: Finding a 'global estimate' of the SFS
- 09:5009:50, 26 August 2016 diff hist 0 Thetas,Tajima,Neutrality tests No edit summary
10 August 2016
- 11:1111:11, 10 August 2016 diff hist +121 Haploid calling No edit summary
9 August 2016
- 22:0522:05, 9 August 2016 diff hist 0 Installation →Unix
15 July 2016
- 13:1113:11, 15 July 2016 diff hist +274 RealSFS →Using NGStools/NGSpopgen
- 13:1113:11, 15 July 2016 diff hist +104 RealSFS No edit summary
7 July 2016
- 12:3512:35, 7 July 2016 diff hist +60 Change log No edit summary