Critical Commercial Assays |
Chemagic DNA Tissue extraction |
PerkinElmer |
CAT# CMG-1423 |
TruSeq PCR-Free Library Kit |
Illumina |
CAT# FC-121–3003 |
Deposited Data |
Raw genomic data |
NCBI SRA |
PRJNA602495 |
Behavioral and processed genomic data |
This paper |
https://github.com/noahrose/aaeg_adaptation_human_hosts |
Experimental Models: Organisms/Strains |
Aedes aegypti laboratory colonies (see Table S2) |
This paper |
N/A |
Software and Algorithms |
ADMIXTURE |
[25] |
http://software.genetics.ucla.edu/admixture/ |
PCAdapt |
[26] |
https://cran.r-project.org/web/packages/pcadapt/ |
VCFtools |
[44] |
https://vcftools.github.io |
BWA-MEM |
[45] |
http://bio-bwa.sourceforge.net |
bcftools |
[46] |
http://samtools.github.io/bcftools |
PicardTools |
[47] |
https://broadinstitute.github.io/picard/ |
GATK |
[48] |
https://gatk.broadinstitute.org/ |
ANGSD |
[49] |
http://www.popgen.dk/angsd |
R |
[50] |
https://www.r-project.org/ |
glmmTMB |
[51] |
https://cran.r-project.org/web/packages/glmmTMB |
Emmeans |
[52] |
https://cran.r-project.org/web/packages/emmeans |
MonoPoly |
[54] |
https://cran.r-project.org/web/packages/MonoPoly |
PLINK |
[55] |
http://zzz.bwh.harvard.edu/plink/ |
Dsuite |
[56] |
https://github.com/millanek/Dsuite |
ngsTools |
[57] |
https://github.com/mfumagalli/ngsTools |
Other |
Custom data analysis scripts |
This paper |
https://github.com/noahrose/aaeg_adaptation_human_hosts |