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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25 September 2012
- 18:4118:41, 25 September 2012 diff hist +450 Filters →Selected Sites
- 17:3217:32, 25 September 2012 diff hist +1 Installation →Download
- 17:3217:32, 25 September 2012 diff hist 0 ANGSD No edit summary
- 04:0004:00, 25 September 2012 diff hist +76 Genotype Likelihoods →output genotype likelihoods
- 03:3803:38, 25 September 2012 diff hist +211 Change log →Version notes
- 03:3703:37, 25 September 2012 diff hist +56 Genotype Likelihoods →soapSNP
- 03:3503:35, 25 September 2012 diff hist +81 Genotype Likelihoods →options
- 03:3503:35, 25 September 2012 diff hist −166 Genotype Likelihoods →options
- 03:3403:34, 25 September 2012 diff hist +1 ANGSD No edit summary
23 September 2012
- 00:3500:35, 23 September 2012 diff hist −60 SFS Estimation →realSFS
22 September 2012
- 20:4320:43, 22 September 2012 diff hist +1 Installation →Unix
- 20:4220:42, 22 September 2012 diff hist +2 Installation →Download
- 20:4220:42, 22 September 2012 diff hist +86 Installation →Download
- 20:3920:39, 22 September 2012 diff hist +45 ANGSD No edit summary
2 July 2012
- 11:3711:37, 2 July 2012 diff hist +559 Genotype Likelihoods →soapSNP
29 June 2012
- 15:3715:37, 29 June 2012 diff hist −16 Regionfile No edit summary current
- 15:3615:36, 29 June 2012 diff hist −1 Regionfile No edit summary
- 15:3615:36, 29 June 2012 diff hist +664 N Regionfile Created page with "When your inputfile is bam files, then you can specify region You can specify a specific region using the following 3 ways: <examople> ./angsd -bam bamfiles.list -r chr20: ...."
22 June 2012
- 22:1822:18, 22 June 2012 diff hist +137 N Glf files Created page with "DRAGON ;-doGlf 1; tglf binary 10xdouble per sample ;-doGlf 2; beagle output gz requires -doMajorMinor 1/2 ;-doGlf otehrwise text output"
- 16:0316:03, 22 June 2012 diff hist +3 Genotype Likelihoods →Kim et al.
- 16:0216:02, 22 June 2012 diff hist +22 Genotype Likelihoods →soapSNP
19 June 2012
- 14:0414:04, 19 June 2012 diff hist +587 Filters No edit summary
- 14:0114:01, 19 June 2012 diff hist +900 Filters No edit summary
- 13:5813:58, 19 June 2012 diff hist +428 Filters No edit summary
- 12:4812:48, 19 June 2012 diff hist +114 Filters No edit summary
- 12:4212:42, 19 June 2012 diff hist 0 Filters No edit summary
- 12:4212:42, 19 June 2012 diff hist −9 Filters No edit summary
- 12:4212:42, 19 June 2012 diff hist +2 Filters No edit summary
- 12:4112:41, 19 June 2012 diff hist +342 N Filters Created page with "In most analysis you are only interested in a subset of sites and not all sites. Currently we have the following filter options. 1. ;-minMaf float: only work with sites with..."
- 12:3412:34, 19 June 2012 diff hist +107 SNP Calling No edit summary current
- 12:3312:33, 19 June 2012 diff hist +444 SNP Calling No edit summary
- 12:2012:20, 19 June 2012 diff hist +94 Allele Frequencies →Estimator from sequencing data
- 12:1812:18, 19 June 2012 diff hist +73 Genotype calling No edit summary
- 12:1512:15, 19 June 2012 diff hist +107 N SNP Calling Created page with "angsd can estimate and LRT for the site being variable. This works in tandem with -doMAF and -doMajorMinor."
- 12:0112:01, 19 June 2012 diff hist −265 SFS Estimation →Full example for simulating nextgen data and estimating SFS (somewhat deprecated should use sfstools now)
- 11:3411:34, 19 June 2012 diff hist +31 SFS Estimation →realSFS
- 11:3311:33, 19 June 2012 diff hist −41 SFS Estimation →realSFS
- 11:3111:31, 19 June 2012 diff hist −2 Input →tglf
- 11:3011:30, 19 June 2012 diff hist −6 Input →tglf
- 11:3011:30, 19 June 2012 diff hist +258 Input →tglf
- 11:2711:27, 19 June 2012 diff hist +10 Input →genotype likelihood files
- 11:2611:26, 19 June 2012 diff hist +461 Input →genotype likelihood files
- 11:2011:20, 19 June 2012 diff hist 0 Input →optional arguments
- 11:1911:19, 19 June 2012 diff hist −38 Input →bam files
- 11:1711:17, 19 June 2012 diff hist +1 Input No edit summary
14 June 2012
- 13:3713:37, 14 June 2012 diff hist +7 N Major Minor Created page with "SuX CuX"
1 June 2012
- 09:1509:15, 1 June 2012 diff hist +126 ANGSD →Commands
- 09:1309:13, 1 June 2012 diff hist +22 ANGSD →Commands
- 09:1209:12, 1 June 2012 diff hist +293 ANGSD →Commands
- 09:0809:08, 1 June 2012 diff hist +20 ANGSD No edit summary