PBScan

KO | EN

gitlite — search

#javascript #hacktoberfest #react #ai #typescript #go #android #machine-learning #linux #docker #nodejs #cli #kubernetes #awesome-list

(★ 15)

Selection outlier scan with population branch statistic

PBScan 최신버젼 다운로드

최종 버전 다운로드 (.zip)

// repository documentation

Was this content helpful?

★ 0 (0 ratings)

# PBScan
Selection outlier scan with population branch statistic

Compiling:
gcc pbscan.c -lm -o pbscan

For help and options:
./pbscan

Usage example:
./pbscan -likes example.likes -pop1 list1.txt -pop2 list2.txt -pop3 list3.txt -out output -win 50 -step 51 -ms example.ms -div 2 -min 5 -maf 0.05

PBScan is run on genotype likelihoods (-likes), with -pop1 and -pop2 defining individuals belonging to the two focal populations and -pop3 defining the outgroup population. Analysis is done in 50 SNP non-overlapping sliding windows (-win 50 and -step 51), using neutral data generated with ms (-ms) in outlier detection. Population differentiation is estimated with dXY (-div 2). Sites with less than 5 individuals per population (-min 5) and minor allele frequency less than 0.05 (-maf 0.05) are further excluded from the analysis. Files can be found in the example_data folder.

See the manual for more information

If you use PBScan, please cite: 
Hämälä T and Savolainen O (2019). Genomic patterns of local adaptation under gene flow in Arabidopsis lyrata. Molecular Biology and Evolution. Doi: 10.1093/molbev/msz149.

PBScan

PBScan 최신버젼 다운로드

오늘의 추천 프로젝트

Was this content helpful?

Recent Feedback

PBScan

PBScan 최신버젼 다운로드

오늘의 추천 프로젝트

Was this content helpful?

Recent Feedback

Download README