glactools
ngsLD
| glactools | ngsLD | |
|---|---|---|
| 1 | 1 | |
| 28 | 37 | |
| - | - | |
| 2.4 | 4.9 | |
| 3 months ago | 6 months ago | |
| C++ | C++ | |
| GNU General Public License v3.0 only | GNU General Public License v3.0 only |
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glactools
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Converting 23&Me raw data into a format usable by Admixtools 2
I've tried working on solving this on my own for hours now (with the help of ChatGPT lol) but the furthest that I got was trying to use something called glactools (which can apparently convert 23andme data to ACF files and then to eigenstrat format), but I wasn't able to get it running on my mac because my filesystem probably needs a complete reset at this point and I'm not very good with bash.
ngsLD
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angsd file conversion + subsetting help?
However, I realised I needed to go back and run NGSrelate on my samples (oops). This requires DoGlf 3, which according to the documentation, and this link, is a binary beagle file. I was in the process of rerunning angsd when my CPU hours ran out on the server, and it crashed (lets call this angsd run 2). It has however finished 4 days worth of analyses that I don't want to have to rerun.
What are some alternatives?
flynt - Component based WordPress starter theme, powered by ACF Pro and Timber, optimized for a11y and fast page load results.
TPMCalculator - TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files
pureples - Pure Python Library for ES-HyperNEAT. Contains implementations of HyperNEAT and ES-HyperNEAT.
NgsRelate
kuwala - Kuwala is the no-code data platform for BI analysts and engineers enabling you to build powerful analytics workflows. We are set out to bring state-of-the-art data engineering tools you love, such as Airbyte, dbt, or Great Expectations together in one intuitive interface built with React Flow. In addition we provide third-party data into data science models and products with a focus on geospatial data. Currently, the following data connectors are available worldwide: a) High-resolution demographics data b) Point of Interests from Open Street Map c) Google Popular Times
fastp - An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
acf-builder - An Advanced Custom Field Configuration Builder
pypop - PyPop: Python for Population Genomics
covid19_scenarios - Models of COVID-19 outbreak trajectories and hospital demand
chaotix - The chaotix operating system! (Previously known as Magma or Psychix)