21 The month of january: “–extract variety” and you will “–prohibit diversity” no more mistake away whenever its input files contain a great chromosome code absent about current dataset.
: Fixed –meta-analysis-se-profession bug. –meta-analysis-chr-profession and you can –meta-analysis-bp-profession flags added. Throughout the invention create, –dfam continuously mistakes away which have an appropriate content, unlike possibly segfaulting, when zero legitimate circumstances are present.
twenty eight Oct: –meta-analysis-se-industry banner extra, to possess interoperation that have present PLINK dos.0 logistic regression productivity (hence spends an effective ‘LOG(OR)_SE’ occupation title to disambiguate the standard error’s products).
Repaired “–design gen” permutation comparison insect
twenty four Oct: Repaired uninitialized-adjustable bug into the –dose + –q-score-assortment. “–indep-pairwise 500kb . ” works properly once more (the last build needed a gap through to the ‘kb’).
cuatro Mar: Brackets inside command-line assist text message are actually found in a means a whole lot more comparable some other equipment. –evaluation now performs properly whenever an effective numeric conflict is step 1 previous the conclusion.
twenty six Can get (beta 6): –merge-equal-pos bugfixes. For individuals who used –merge-equal-pos with .bed+.bim+.fam filesets in which allele purchase possess differed ranging from .bim records, otherwise having one .ped+.chart fileset whatsoever, we recommend redoing that run.
: –meta-data ‘report-all’ now profile original statistics unlike ‘NA’ whenever Letter=step 1. Repaired an enthusiastic inaccuracy when you look at the –adjust’s management of really small p-beliefs. –make-just-fam work safely in just .fam enter in once more.
14 Late (beta 5): –file + –merge[-list] bugfix. map document try unsorted, but when you have the options we recommend redoing one –file + –merge and you may –file + –merge-list multi-.ped merges did which have prior to plink 1.9 makes. (.bed combining is unchanged, and you will –merge-number in place of –file is actually nearly never ever impacted.)
15 October: A2 allele is starting to become constantly resource into the chr3 inside our 1000 Genomes stage step 1 downloads. In most cases, never be prepared to remain REF/ALT alleles upright having PLINK 1.x, however, we made an effort to make A2 consistently site on these records whilst still being didn’t slightly make it; https://datingranking.net/es/citas-bautistas/ disappointed about that. (Why are which located now, over dos.5 years adopting the fact? Due to the fact PLINK dos.0 presently has a great –ref-from-fa flag that can effortlessly search for these error.)
13 Oct: “–freq matters” no further provides reversed efficiency when alleles was indeed turned of the first .bim/.bed order. Repaired –logistic insect which could end up in spurious NA performance.
7 Oct: Fixed spot-instance (a couple of four haplotypes have no identified findings) insect into the –ld/–r2/–blocks/–clump’s statistical phasing techniques. 32-portion build may now type >2GB .sleep data files instead of crashing. –annotate and –gene-statement today work at –allow-extra-chr.
fifteen Aug: –lasso is today work effectively when there are examples with covariates establish however the fundamental phenotype destroyed.
21 Get: “–linear correspondence gender” and you will “–logistic correspondence intercourse” today work properly when zero covariates are present. –tucc put into development create.
20 February (beta 4): –pca var-wts today records allele requirements. Slight mathematical phasing bugfix. –[max-]mac computer, –Roentgen, and you may –thin-indiv[-count] don’t categorized since volatile. PLINK dos.0 alpha produces are now readily available.
That it bug is actually much more likely to help you end up in in case your very first
thirteen November: –geno/–forgotten now eradicate heterozygous haploid phone calls because the nonmissing; this is certainly in keeping with –head, and you may PLINK step 1.07’s choices that have –recode/–make-bed effective. They might be today contradictory as to what PLINK step one.07 did rather than –recode/–make-bed; have fun with –make-sleep + –set-hh-destroyed very first if you need the outdated behavior. “–ci 0.95” don’t supplies ‘L94’/’U94’ column labels when plink will get unfortunate with rounding. Minor –exclude/–extract/–flip bugfix to have input records without newline at the bottom. –qfam[-within] bugfix. –serving ‘sex’ modifier now work properly whenever particular products was blocked away (age.g. due to the fact certain phenotypes have been destroyed).
20 September: VCF export not any longer removes an alt allele missing on the quick dataset, because of a beneficial retroactive revise for the VCF specification.