the SNPHWE code from Wigginton et al ( ).QCTOOL gratefully makes use of functionality from the following projects:
#Qctools v2 conda software#
Inthinnerator, HPTEST, LDBIRD and all other included software was written by Gavin Band. QCTOOL was written by Gavin Band, based on an initial design by Gavin Band and Jonathan Marchini. For GPU support, we’ve been grateful to use the work of Chainer’s CuPy module, which provides a numpy-compatible interface for GPU arrays. See the respective folders for these packages for details. As of v2.0, spaCy comes with neural network models that are implemented in our machine learning library, Thinc. These include the BSD License and the GNU QCTOOL usesĬode from 3rd party packages described below, that use their own licenses. The QCTOOL package is copyright Gavin Band released under the Boost software license. Issues should be reported on the issue tracker. Read the LDBIRD documentation for more details.īasic instructions for obtaining and/or compiling this package can be found on theįor further information, see the wiki page on compiling QCTOOL. LDBIRD, a program for computing LD metrics between all pairs of variants in a genomic region or across whole genomes.Read the HPTEST documentation for more details. HPTEST, a program for testing for association between host and parasite genotypes.Inthinnerator, a program for thinning genetic variants using a recombination map.QCTOOL, a program for manipulation and quality control of gwas datasets and other genome-wide data.The repository is hosted at and is also mirrored on github.
That manipulate gwas datasets and other genomic data. This repository contains the source code for QCTOOL and a number of other command-line programs
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