# HG changeset patch # User iuc # Date 1637093671 0 # Node ID ec2bc87ebd7bcdc9fdcac70d5bf81a0175517806 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/king/ commit 7e521e5df8cac36549fed2488034c9d1c4376a3a" diff -r 000000000000 -r ec2bc87ebd7b king.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/king.xml Tue Nov 16 20:14:31 2021 +0000 @@ -0,0 +1,328 @@ + + + Kinship-based INference for GWAS + + 2.2.4 + 0 + + + king + r-kinship2 + r-igraph + + + king | head -1 | cut -d' ' -f 2 + + '$kingoutlog' + ]]> + + + + + + + + + + + + + + + + + + + + + + use_log == True + + + + + + use_log == True + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + `_ is a toolset that makes use of high-throughput SNP data typically seen in a genome-wide association study (GWAS) + or a sequencing project. Applications of KING include family relationship inference and pedigree error checking, + quality control, population substructure identification, forensics, gene mapping, etc. + + ]]> + + + 10.1093/bioinformatics/btq559 + + diff -r 000000000000 -r ec2bc87ebd7b test-data/new.6000.bed Binary file test-data/new.6000.bed has changed diff -r 000000000000 -r ec2bc87ebd7b test-data/new.6000.bim --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/new.6000.bim Tue Nov 16 20:14:31 2021 +0000 @@ -0,0 +1,6000 @@ +1 rs11240777 0 788822 G A +1 rs9442373 0 1052501 C A +1 rs4970420 0 1096336 G A +1 rs1571150 0 1464167 C A +1 rs4648611 0 1540565 A G +1 rs4074196 0 1601858 C T +1 rs2748986 0 1837716 T G +1 rs11584491 0 2032403 A G +1 rs35513983 0 2242619 A G +1 rs2843127 0 2305577 A G +1 rs2840532 0 2317675 C T +1 rs2843404 0 2520418 T C +1 rs9782915 0 2831740 G A +1 rs6695131 0 2990784 C T +1 rs2993502 0 3017201 T C +1 rs2817185 0 3052221 G A +1 rs2455119 0 3174715 G T +1 rs11578011 0 3308392 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-r 000000000000 -r ec2bc87ebd7b test-data/new.6000.log --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/new.6000.log Tue Nov 16 20:14:31 2021 +0000 @@ -0,0 +1,16 @@ +PLINK v1.90b6.21 64-bit (19 Oct 2020) +Options in effect: + --file sub + --out new.6000 + +Hostname: kaktus +Working directory: /home/tetris/repos/_galaxy/tools-iuc/tools/king/test-data +Start time: Wed Oct 20 16:14:42 2021 + +Random number seed: 1634739282 +15797 MB RAM detected; reserving 7898 MB for main workspace. +Scanning .ped file... done. +Performing single-pass .bed write (6000 variants, 332 people). +--file: new.6000.bed + new.6000.bim + new.6000.fam written. + +End time: Wed Oct 20 16:14:42 2021