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January 2013

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Subject	From	Date	Size
Re: Different outcome SNP test and PLINK	Jonathan Marchini	Thu, 31 Jan 2013 23:58:05 +0000	429 lines
Re: QCTOOL: Problem Converting VCF to BGEN	Vince Forgetta	Thu, 31 Jan 2013 18:40:43 -0500	104 lines
Re: Different outcome SNP test and PLINK	Gavin Band	Thu, 31 Jan 2013 22:53:27 +0000	302 lines
Re: QCTOOL: Problem Converting VCF to BGEN	Gavin Band	Thu, 31 Jan 2013 21:12:47 +0000	83 lines
SHAPEIT won't run under older version of glibc library	Roger Green	Thu, 31 Jan 2013 20:43:31 +0000	26 lines
Re: QCTOOL: Problem Converting VCF to BGEN	Vince Forgetta	Thu, 31 Jan 2013 17:45:53 +0000	29 lines
best guess haplotype or posterior haplotype	h-zheng	Thu, 31 Jan 2013 12:39:47 -0500	193 lines
QCTOOL: Problem Converting VCF to BGEN	Vince Forgetta	Thu, 31 Jan 2013 17:31:52 +0000	48 lines
question about impute2 concordance	Zhang, Weiming	Thu, 31 Jan 2013 10:13:55 -0700	226 lines
Re: Imputing X Chromosome data	Matt Blades	Thu, 31 Jan 2013 15:57:26 +0000	26 lines
Re: Different outcome SNP test and PLINK	Dijk, FN (bkk)	Thu, 31 Jan 2013 15:00:00 +0000	301 lines
Re: questions about snptest	Zhang, Weiming	Wed, 30 Jan 2013 14:11:14 -0700	176 lines
Re: questions about snptest	Gavin Band	Wed, 30 Jan 2013 21:06:25 +0000	110 lines
Re: Different outcome SNP test and PLINK	Gavin Band	Wed, 30 Jan 2013 20:55:55 +0000	79148 lines
questions about snptest	Zhang, Weiming	Wed, 30 Jan 2013 13:48:37 -0700	95 lines
Re: chromosome X allele frequencies in legend file - and format	Sarah Nelson	Wed, 30 Jan 2013 12:23:27 -0800	386 lines
Re: Imputing X Chromosome data	Bryan Howie	Wed, 30 Jan 2013 13:37:14 -0600	95 lines
Re: chromosome X allele frequencies in legend file - and format	Bryan Howie	Wed, 30 Jan 2013 13:34:42 -0600	194 lines
Re: legend file	Namjou-Khales, Bahram	Wed, 30 Jan 2013 19:34:30 +0000	604 lines
Re: legend file	Bryan Howie	Wed, 30 Jan 2013 13:32:58 -0600	518 lines
Different outcome SNP test and PLINK	Nicole Dijk	Wed, 30 Jan 2013 18:10:02 +0000	40380 lines
Reading and QC of GEN Format files in other StatGen Programs	Mychaleckyj, Josyf (jcm6t)	Wed, 30 Jan 2013 15:51:21 +0000	173 lines
Re: legend file	Namjou-Khales, Bahram	Wed, 30 Jan 2013 14:39:06 +0000	511 lines
Imputing X Chromosome data	Matt Blades	Wed, 30 Jan 2013 11:04:37 +0000	29 lines
chromosome X allele frequencies in legend file - and format	Dina Christian	Wed, 30 Jan 2013 10:39:21 +0100	147 lines
Re: Using SHAPEIT (v2) on 4 cohorts	Jonathan Marchini	Tue, 29 Jan 2013 10:53:31 +0000	94 lines
Using SHAPEIT (v2) on 4 cohorts	Latchezar (Lucho) Dimitrov	Mon, 28 Jan 2013 22:42:05 +0000	81 lines
Re: legend file	Namjou-Khales, Bahram	Mon, 28 Jan 2013 22:29:51 +0000	474 lines
Re: memory model of Shapeit	Zhang, Weiming	Mon, 28 Jan 2013 12:06:08 -0700	148 lines
Re: legend file	Bryan Howie	Mon, 28 Jan 2013 12:37:41 -0600	304 lines
Re: memory model of Shapeit	Bryan Howie	Mon, 28 Jan 2013 12:32:58 -0600	78 lines
Re: memory model of Shapeit	Zhang, Weiming	Mon, 28 Jan 2013 10:20:22 -0700	173 lines
Re: memory model of Shapeit	Zhang, Weiming	Mon, 28 Jan 2013 10:09:05 -0700	247 lines
Re: memory model of Shapeit	olivier delaneau	Mon, 28 Jan 2013 16:58:14 +0000	154 lines
Re: memory model of Shapeit	Bryan Howie	Mon, 28 Jan 2013 10:53:23 -0600	87 lines
Re: strand file	Bryan Howie	Mon, 28 Jan 2013 10:52:02 -0600	504 lines
legend file	Namjou-Khales, Bahram	Sat, 26 Jan 2013 23:54:12 +0000	262 lines
memory model of Shapeit	Zhang, Weiming	Fri, 25 Jan 2013 19:54:08 -0700	63 lines
Re: strand file	Latchezar (Lucho) Dimitrov	Sat, 26 Jan 2013 01:21:12 +0000	482 lines
Re: id error in shapeit	Latchezar (Lucho) Dimitrov	Fri, 25 Jan 2013 23:01:02 +0000	216 lines
Re: scenario B question	Namjou-Khales, Bahram	Fri, 25 Jan 2013 22:59:57 +0000	377 lines
Re: scenario B question	Bryan Howie	Fri, 25 Jan 2013 16:58:44 -0600	261 lines
Re: scenario B question	Namjou-Khales, Bahram	Fri, 25 Jan 2013 22:56:14 +0000	243 lines
Re: scenario B question	Bryan Howie	Fri, 25 Jan 2013 16:47:11 -0600	98 lines
Re: scenario B question	Namjou-Khales, Bahram	Fri, 25 Jan 2013 22:28:02 +0000	226 lines
Re: snp-name-impute2	Bryan Howie	Fri, 25 Jan 2013 15:31:10 -0600	269 lines
Re: strand file	Bryan Howie	Fri, 25 Jan 2013 15:15:53 -0600	349 lines
Re: scenario B question	Bryan Howie	Fri, 25 Jan 2013 15:09:29 -0600	81 lines
Re: id error in shapeit	Zhang, Weiming	Fri, 25 Jan 2013 10:20:03 -0700	179 lines
Re: id error in shapeit	olivier delaneau	Fri, 25 Jan 2013 17:15:13 +0000	111 lines
id error in shapeit	Zhang, Weiming	Fri, 25 Jan 2013 10:12:58 -0700	72 lines
Re: SHAPEIT2 .haps files - no "chromosome number" field	Stephane Bourgeois	Fri, 25 Jan 2013 11:48:36 -0000	358 lines
Re: SHAPEIT2 .haps files - no "chromosome number" field	olivier delaneau	Fri, 25 Jan 2013 11:34:08 +0000	169 lines
Re: SHAPEIT2 .haps files - no "chromosome number" field	Kalliope Panoutsopoulou	Fri, 25 Jan 2013 11:25:45 -0000	298 lines
Re: SHAPEIT2 .haps files - no "chromosome number" field	Hu, Donglei	Thu, 24 Jan 2013 23:52:23 +0000	210 lines
SHAPEIT2 .haps files - no "chromosome number" field	Sarah Nelson	Thu, 24 Jan 2013 15:41:34 -0800	170 lines
Re: pdf manual for IMPUTE2 and SHAPEIT2?	Latchezar (Lucho) Dimitrov	Thu, 24 Jan 2013 23:10:14 +0000	386 lines
Re: pdf manual for IMPUTE2 and SHAPEIT2?	Sarah Nelson	Thu, 24 Jan 2013 14:51:03 -0800	316 lines
Re: snp-name-impute2	Namjou-Khales, Bahram	Thu, 24 Jan 2013 22:22:04 +0000	230 lines
Re: strand file	Latchezar (Lucho) Dimitrov	Thu, 24 Jan 2013 22:20:34 +0000	324 lines
Re: pdf manual for IMPUTE2 and SHAPEIT2?	Latchezar (Lucho) Dimitrov	Thu, 24 Jan 2013 21:59:13 +0000	240 lines
Re: Imputation quality metrics	Nandakumar, Kannabiran	Thu, 24 Jan 2013 16:55:19 -0500	299 lines
Re: scenario B question	Namjou-Khales, Bahram	Thu, 24 Jan 2013 21:52:55 +0000	419 lines
building qctools on a CentOS-5 system	Johnson, Glenn P	Thu, 24 Jan 2013 21:44:41 +0000	198 lines
Re: pdf manual for IMPUTE2 and SHAPEIT2?	Bryan Howie	Thu, 24 Jan 2013 13:29:53 -0600	73 lines
pdf manual for IMPUTE2 and SHAPEIT2?	Sarah Nelson	Thu, 24 Jan 2013 11:14:21 -0800	93 lines
Re: SHAPEIT question	olivier delaneau	Thu, 24 Jan 2013 11:20:56 +0000	733 lines
Re: scenario B question	LI Yi (GIS)	Thu, 24 Jan 2013 16:16:37 +0800	257 lines
Re: Imputation quality metrics	Jonathan Marchini	Thu, 24 Jan 2013 02:22:42 +0000	286 lines
Re: Imputation quality metrics	Nandakumar, Kannabiran	Wed, 23 Jan 2013 19:25:24 -0500	163 lines
Re: scenario B question	Namjou-Khales, Bahram	Thu, 24 Jan 2013 00:16:56 +0000	361 lines
Re: Imputation quality metrics	Jonathan Marchini	Wed, 23 Jan 2013 23:20:42 +0000	136 lines
Re: scenario B question	Bryan Howie	Wed, 23 Jan 2013 17:17:46 -0600	235 lines
Re: Genotype imputation for cancer cell line	Bryan Howie	Wed, 23 Jan 2013 17:16:28 -0600	127 lines
Re: Imputation quality metrics	Nandakumar, Kannabiran	Wed, 23 Jan 2013 18:16:05 -0500	99 lines
Re: scenario B question	Namjou-Khales, Bahram	Wed, 23 Jan 2013 22:27:06 +0000	223 lines
Genotype imputation for cancer cell line	Jason Wong	Wed, 23 Jan 2013 22:26:02 +0000	29 lines
Re: Imputation quality metrics	Bryan Howie	Wed, 23 Jan 2013 16:15:15 -0600	76 lines
Re: scenario B question	Bryan Howie	Wed, 23 Jan 2013 16:00:03 -0600	81 lines
Imputation quality metrics	Kanna N	Wed, 23 Jan 2013 21:42:29 +0000	18 lines
Re: scenario B question	Namjou-Khales, Bahram	Wed, 23 Jan 2013 21:22:29 +0000	424 lines
Re: scenario B question	Bryan Howie	Wed, 23 Jan 2013 15:12:28 -0600	82 lines
Re: scenario B question	Bryan Howie	Wed, 23 Jan 2013 15:07:30 -0600	197 lines
SHAPEIT question	Audrey GRANT	Wed, 23 Jan 2013 20:55:52 +0100	720 lines
Re: SHAPEIT question	olivier delaneau	Wed, 23 Jan 2013 19:07:44 +0000	503 lines
Re: SHAPEIT question	Hu, Donglei	Wed, 23 Jan 2013 18:49:32 +0000	415 lines
Re: Using SHAPEIT haplotypes followed by imputation with different reference panel	olivier delaneau	Wed, 23 Jan 2013 15:15:32 +0000	638 lines
Re: Using SHAPEIT haplotypes followed by imputation with different reference panel	Kristin Ayers	Wed, 23 Jan 2013 14:21:31 +0000	563 lines
Re: SHAPEIT question	olivier delaneau	Wed, 23 Jan 2013 14:14:15 +0000	101 lines
Re: Using SHAPEIT haplotypes followed by imputation with different reference panel	olivier delaneau	Wed, 23 Jan 2013 14:12:01 +0000	291 lines
SHAPEIT question	Hu, Donglei	Tue, 22 Jan 2013 19:19:54 +0000	94 lines
Using SHAPEIT haplotypes followed by imputation with different reference panel	Kristin	Tue, 22 Jan 2013 18:07:10 +0000	93 lines
Imputation strategy and a problem.	Kevin Lu	Tue, 22 Jan 2013 17:04:08 +0000	249 lines
type 2 and 3 question	Massimiliano Cocca	Tue, 22 Jan 2013 16:30:09 +0000	52 lines
Re: scenario B question	LI Yi (GIS)	Tue, 22 Jan 2013 17:53:40 +0800	282 lines
Re: scenario B question	Namjou-Khales, Bahram	Tue, 22 Jan 2013 00:27:33 +0000	298 lines
Re: snp-name-impute2	Bryan Howie	Mon, 21 Jan 2013 14:54:21 -0600	120 lines
Re: scenario B question	Bryan Howie	Mon, 21 Jan 2013 14:49:36 -0600	112 lines
snp-name-impute2	Namjou-Khales, Bahram	Sun, 20 Jan 2013 19:10:39 +0000	133 lines
Gtool-impute2	Namjou-Khales, Bahram	Sat, 19 Jan 2013 23:30:40 +0000	108 lines
Re: SEX CHROMOSOME IMPUTE	Marinelli, Marcella	Sat, 19 Jan 2013 14:03:55 +0100	219 lines
Re: scenario B question	Namjou-Khales, Bahram	Sat, 19 Jan 2013 00:54:59 +0000	252 lines
Re: scenario B question	Bryan Howie	Fri, 18 Jan 2013 18:46:41 -0600	121 lines
scenario B question	Namjou-Khales, Bahram	Fri, 18 Jan 2013 22:23:02 +0000	112 lines
Re: SEX CHROMOSOME IMPUTE	Bryan Howie	Fri, 18 Jan 2013 13:39:22 -0600	613 lines
Re: SEX CHROMOSOME IMPUTE	Bryan Howie	Fri, 18 Jan 2013 13:36:45 -0600	682 lines
Re: SEX CHROMOSOME IMPUTE	Bryan Howie	Fri, 18 Jan 2013 13:29:19 -0600	108 lines
Re: SEX CHROMOSOME IMPUTE	Marinelli, Marcella	Fri, 18 Jan 2013 17:42:44 +0100	734 lines
Re: SEX CHROMOSOME IMPUTE	Marinelli, Marcella	Fri, 18 Jan 2013 14:16:34 +0100	791 lines
Re: SEX CHROMOSOME IMPUTE	Marinelli, Marcella	Fri, 18 Jan 2013 10:57:18 +0100	900 lines
Re: SEX CHROMOSOME IMPUTE	Bryan Howie	Thu, 17 Jan 2013 14:31:26 -0600	405 lines
Re: SEX CHROMOSOME IMPUTE	Marinelli, Marcella	Thu, 17 Jan 2013 10:05:09 +0100	1237 lines
Re: SEX CHROMOSOME IMPUTE	Bryan Howie	Wed, 16 Jan 2013 16:03:17 -0600	109 lines
SEX CHROMOSOME IMPUTE	Marinelli, Marcella	Wed, 16 Jan 2013 16:07:48 +0100	128 lines
Re: using hapgen2 to simulate a sequence of markers with 1 disease SNP	Jonathan Marchini	Wed, 16 Jan 2013 13:39:53 +0000	75 lines
using hapgen2 to simulate a sequence of markers with 1 disease SNP	Sheena Lin	Wed, 16 Jan 2013 09:39:27 +0800	64 lines
Ped files generated from QCTOOL suitable for Merlin?	Manon Bernard	Tue, 15 Jan 2013 14:57:56 -0500	216 lines
Re: impuate 2 and race	Namjou-Khales, Bahram	Tue, 15 Jan 2013 16:59:49 +0000	791 lines
Re: impuate 2 and race	Bryan Howie	Tue, 15 Jan 2013 10:58:16 -0600	694 lines
Re: do we need the strand file	Zhang, Weiming	Tue, 15 Jan 2013 09:54:47 -0700	152 lines
Re: impuate 2 and race	Namjou-Khales, Bahram	Tue, 15 Jan 2013 16:51:30 +0000	674 lines
Re: impuate 2 and race	Bryan Howie	Tue, 15 Jan 2013 10:48:24 -0600	574 lines
Re: impuate 2 and race	Namjou-Khales, Bahram	Tue, 15 Jan 2013 16:44:30 +0000	553 lines
Re: impuate 2 and race	Bryan Howie	Tue, 15 Jan 2013 10:37:44 -0600	418 lines
Re: hapgen2	Bryan Howie	Tue, 15 Jan 2013 10:04:08 -0600	201 lines
impuate 2 and race	Namjou-Khales, Bahram	Tue, 15 Jan 2013 15:19:56 +0000	461 lines
Re: HAPGEN output	Jonathan Marchini	Tue, 15 Jan 2013 13:55:06 +0000	39 lines
Re: HAPGEN output	eleonora porcu	Tue, 15 Jan 2013 14:52:21 +0100	39 lines
Re: HAPGEN output	Jonathan Marchini	Tue, 15 Jan 2013 13:49:12 +0000	25 lines
Re: hapgen2	eleonora porcu	Tue, 15 Jan 2013 14:48:37 +0100	70 lines
Re: minor allele in 1000 G ref	Jonathan Marchini	Tue, 15 Jan 2013 13:44:37 +0000	34 lines
Re: hapgen2	Jonathan Marchini	Tue, 15 Jan 2013 13:42:20 +0000	46 lines
Re: Merging imputed data	Gavin Band	Tue, 15 Jan 2013 10:39:45 +0000	668 lines
minor allele in 1000 G ref	Sheena Lin	Tue, 15 Jan 2013 09:59:49 +0000	21 lines
hapgen2	Sheena Lin	Tue, 15 Jan 2013 08:11:59 +0000	27 lines
Re: How to get sequence data (vcf format) in reference panel format	Mark Iles	Mon, 14 Jan 2013 20:47:46 +0000	191 lines
Re: do we need the strand file	Bryan Howie	Mon, 14 Jan 2013 14:02:29 -0600	87 lines
Re: Merging imputed data	Massimiliano Cocca	Mon, 14 Jan 2013 20:17:50 +0100	657 lines
do we need the strand file	Zhang, Weiming	Mon, 14 Jan 2013 09:33:34 -0700	65 lines
Re: strategy question	Namjou-Khales, Bahram	Mon, 14 Jan 2013 15:11:32 +0000	342 lines
Re: strategy question	Bryan Howie	Mon, 14 Jan 2013 02:32:26 -0600	200 lines
Re: How to get sequence data (vcf format) in reference panel format	Bryan Howie	Mon, 14 Jan 2013 02:11:24 -0600	454 lines
SNPTEST for Cygwin	Nikolay Oskolkov	Sun, 13 Jan 2013 22:28:22 +0000	21 lines
Re: How to get sequence data (vcf format) in reference panel format	Jonathan Marchini	Sun, 13 Jan 2013 18:41:17 +0000	442 lines
Re: -exclude_samples_g_ref does not work for phased reference panels	Bryan Howie	Sat, 12 Jan 2013 15:45:15 -0600	155 lines
Re: impute vs shapeit	Bryan Howie	Sat, 12 Jan 2013 14:42:42 -0600	112 lines
Re: How to get sequence data (vcf format) in reference panel format	Mark Iles	Sat, 12 Jan 2013 07:31:46 +0000	165 lines
Re: How to get sequence data (vcf format) in reference panel format	Bryan Howie	Fri, 11 Jan 2013 16:52:05 -0600	331 lines
Re: strategy question	Namjou-Khales, Bahram	Fri, 11 Jan 2013 19:53:47 +0000	282 lines
Re: SNPTEST source code	Gavin Band	Fri, 11 Jan 2013 15:10:56 +0000	65 lines
Re: Merging imputed data	Gavin Band	Fri, 11 Jan 2013 14:31:12 +0000	671 lines
How to get sequence data (vcf format) in reference panel format	Mark Iles	Fri, 11 Jan 2013 10:32:42 +0000	128 lines
-exclude_samples_g_ref does not work for phased reference panels	Jie Huang	Fri, 11 Jan 2013 09:40:56 -0000	153 lines
Re: Impute2 exiting prematurely	Mirza, Nasir	Fri, 11 Jan 2013 09:38:46 +0000	411 lines
Re: impute vs shapeit	Mirza, Nasir	Thu, 10 Jan 2013 21:51:29 +0000	808 lines
strategy question	Namjou-Khales, Bahram	Thu, 10 Jan 2013 21:11:47 +0000	238 lines
Re: impute vs shapeit	Namjou-Khales, Bahram	Thu, 10 Jan 2013 20:51:49 +0000	909 lines
Re: impute vs shapeit	Bryan Howie	Thu, 10 Jan 2013 14:22:03 -0600	791 lines
Re: impute vs shapeit	Namjou-Khales, Bahram	Thu, 10 Jan 2013 19:52:50 +0000	967 lines
Re: impute vs shapeit	Bryan Howie	Thu, 10 Jan 2013 13:46:38 -0600	633 lines
Re: impute vs shapeit	Namjou-Khales, Bahram	Thu, 10 Jan 2013 19:44:33 +0000	600 lines
Re: impute vs shapeit	Bryan Howie	Thu, 10 Jan 2013 13:25:10 -0600	463 lines
Re: impute vs shapeit	Namjou-Khales, Bahram	Thu, 10 Jan 2013 19:15:39 +0000	419 lines
Re: Impute2 exiting prematurely	Bryan Howie	Thu, 10 Jan 2013 12:56:33 -0600	340 lines
Impute2 exiting prematurely	Mirza, Nasir	Thu, 10 Jan 2013 18:48:39 +0000	310 lines
Re: impute vs shapeit	Bryan Howie	Thu, 10 Jan 2013 12:42:02 -0600	301 lines
impute vs shapeit	Namjou-Khales, Bahram	Thu, 10 Jan 2013 18:34:56 +0000	282 lines
MULTIMIX source code	Gary Beecham	Thu, 10 Jan 2013 15:36:55 +0000	20 lines
Re: impute2 question	Namjou-Khales, Bahram	Thu, 10 Jan 2013 14:11:46 +0000	171 lines
SNPTEST source code	Kimmo Mattila	Thu, 10 Jan 2013 09:30:45 +0200	48 lines
Re: impute2 question	Bryan Howie	Wed, 9 Jan 2013 14:33:33 -0600	70 lines
HAPGEN output	eleonora porcu	Wed, 9 Jan 2013 16:31:39 +0100	20 lines
impute2 question	Namjou-Khales, Bahram	Wed, 9 Jan 2013 15:25:10 +0000	20 lines
Re: new version of IMPUTE2 (v2.3.0)	Bryan Howie	Mon, 7 Jan 2013 13:41:33 -0600	296 lines
Re: new version of IMPUTE2 (v2.3.0)	Dina Christian	Sat, 5 Jan 2013 17:44:40 +0100	101 lines
new version of IMPUTE2 (v2.3.0)	Jonathan Marchini	Fri, 4 Jan 2013 08:51:24 +0000	81 lines
Re: shapet2 and missing data	Namjou-Khales, Bahram	Thu, 3 Jan 2013 15:31:57 +0000	307 lines
Re: shapet2 and missing data	olivier delaneau	Thu, 3 Jan 2013 11:18:14 +0100	155 lines
Re: IMPUTE2 new version for using multiple reference panels?	Bryan Howie	Wed, 2 Jan 2013 13:48:53 -0600	74 lines
IMPUTE2 new version for using multiple reference panels?	jh21	Wed, 2 Jan 2013 09:35:52 -0500	336 lines
Re: Tri-allelic SNPs and duplicate rows	Robin Young	Wed, 2 Jan 2013 09:13:48 +0000	19 lines
shapet2 and missing data	Namjou-Khales, Bahram	Wed, 2 Jan 2013 02:09:31 +0000	161 lines
Re: Impute2 download links	Namjou-Khales, Bahram	Tue, 1 Jan 2013 17:14:49 +0000	1248 lines
Re: Impute2 download links	Mirza, Nasir	Tue, 1 Jan 2013 13:09:49 +0000	763 lines
Re: Impute2 download links	Jonathan Marchini	Tue, 1 Jan 2013 12:21:52 +0000	994 lines
Impute2 download links	Mirza, Nasir	Tue, 1 Jan 2013 12:13:28 +0000	702 lines

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