> SKILLS

PROGRAMMING LANGUAGES

Python8/10

R8/10

Bash8/10

HTML & JS4/10

SQL3/10

C#2/10

TOOLS & TECHNOLOGIES

Linux (Ubuntu)9/10

Conda9/10

Git8/10

Docker5/10

WES analysis

Preprocessing

BWASamtoolsfastQCMultiQC

Variant Calling

GATK/Mutect2MuSEVarscanCNVkitPindelScanITDGenomonITDetector

Annotation

VepVcf2MAFAnnovarIGVGistic2Sigprofiler

RNA analysis

Mapping

STARHISAT2SamtoolsKallistoSalmon

Expression Quantification

featureCountsRSEMStringTie

Differential Expression Analysis

Deseq2LimmaEdgeR

Functional Enrichment Analysis

GSEAKEGGGO

scRNA analysis

Mapping & filtering

CellRangerScrublet

Filter & clustering

SeuratScanpy

DE analysis & ID

scDEAGarnettCellAssignSingleR

GWAS analysis

Mendelian Randomization

plinkTwoSampleMR

Other

Pipeline development

Expertise in developing and optimizing bioinformatics pipelines for DNA-seq, RNA-seq, scRNA-seq and GWAS.

Machine learning

logistic regressionrandom forest

Deep learning

CNN