Changes

[[File:LASER-Workflow.png|thumb|center|alt=LASER workflow|400px|LASER Workflow]]  

[[File:LASER-Workflow.png|thumb|center|alt=LASER workflow|400px|LASER Workflow]]  

*Seq file: a text file processed from BAM (alignment) files. (See [[Process sequencing file (BAM)]] for how to obtain seq file)  

*Seq file: a text file processed from BAM (alignment) files. (See [[#Process sequencing file (BAM)]] for how to obtain seq file)  

*Geno file: genotypes of reference panels. (See [[Geno file]] to understand geno file format)

*Geno file: genotypes of reference panels. (See [[#Geno file]] to understand geno file format)

In coord files of reference, LASER calculated the Principal Component Analysis (PCA) results of the reference samples; In coord files of sequencing samples, LASER infers their ancestries by placing their ancestry coordinates on the reference coordinates.  

In coord files of reference, LASER calculated the Principal Component Analysis (PCA) results of the reference samples; In coord files of sequencing samples, LASER infers their ancestries by placing their ancestry coordinates on the reference coordinates.  

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= File format  =

= File format  =

= Advanced functions =

= Advanced functions =

If you reach here and want to learn how to run LASER in parallel; improved LASER accuracy by increase rounds of computations. Please refere to the complete LASER manual .

LASER has advanced functions including (1) running parallel jobs; (2) increase ancestry inference using repeated runs; (3) generate PCA coordiates for genotypes.

See its manual for detailed information [[Media:LASER_Manual.pdf | LASER Manual]].  

= Contact  =

= Contact  =

This project was directed by Gonçalo Abecasis and Sebastian Zöllner at the University of Michigan. To address data processing questions, please contact Xiaowei Zhan; for running LASER and interpreting LASER results, please contact Chaolong Wang.

This project was directed by Gonçalo Abecasis and Sebastian Zöllner at the University of Michigan. To address data processing questions, please contact Xiaowei Zhan; for running LASER and interpreting LASER results, please contact Chaolong Wang.