All Published Workflows

Variant filtering snakemake-wrapper-utils BCFtools Snakemake Variant Effect Predictor (VEP) hydra-genetics pysam PyYAML Genetic variation

org.Hs.eg.db Variant filtering Spectra universalmotif BEDTools BiocSklearn Consensus DeepTools FiMO FOCUS ggseqlogo GSEA limma Magma Pandas SCANPY Seurat Snakemake cowplot data.table dplyr ggplot2 ggpubr ggrepel gplots Matrix optparse readxl reshape2 reticulate scales stringi stringr svglite tidyr xlsx yaml anndata cnmf matplotlib numpy PyYAML scipy sklearn GWAS study

Variant filtering biopet-vcffilter gatk manta tabix dragmap BCFtools BWA Bwa-mem2 fastp FastQC FreeBayes HISAT2 mosdepth MultiQC Nextflow SAMtools STAR Strelka Variant Effect Predictor (VEP) VCFtools vt DNA DNA mutation RNA

raw sequence reads Variant filtering genetic variants gatk Bowtie 2 Picard SAMtools RNA-Seq

Alignment Annotation Variant calling Variant filtering bamclipper tabix ASPICov BamTools BCFtools BEDTools BWA fastp FastQC FreeBayes IGVtools MultiQC Nextflow PRINSEQ QUAST SAMtools Singularity Hub snpEff SnpSift Trimmomatic WorkflowHub Genomics