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freebayes

Here are 5 public repositories matching this topic...

digo4 / Clinical-Genomics

Here we are going to discuss variant calling on human datasets using GATK Best practices pipeline

picard samtools bwa-mem varscan bcftools bowtie2 trimgalore cutadapt fastqc freebayes fastp gatk4 trimmomatic gatk-bestpractices gatk-joint-variant-calling-workflow gatk-cnv gatk4-haplotypecaller

Updated Jan 17, 2024
Shell

laura-budurlean / SV-calling-with-SpeedSeq

A workflow for using SpeedSeq to align and call SVs from WGS data

bioinformatics cnv sv structural-variation freebayes delly lumpy speedseq

Updated Aug 24, 2024
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PulmonomicsLab / mcdr-mtb-standalone-v2

Multi-class classification of drug resistance in MTB clinical isolates

machine-learning r vcf shell-script caret variant-calling samtools bwa-mem whole-genome-sequencing multiclass-classification trimgalore multilayer-perceptron freebayes explainable-ai shap mycobacterium-tuberculosis dalex drug-resistance-prediction

Updated May 21, 2024
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AriannaRigamonti / Genomics

Pipeline for automated genomic variant analysis in inherited diseases, integrating alignment, variant calling, and quality control

bioinformatics pipeline genomics ngs computational-biology vcf multiqc variant-calling genetic-analysis bedtools samtools bowtie2 fastqc freebayes qualimap

Updated May 22, 2024
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PulmonomicsLab / mcdr-mtb-standalone

Multi-class classification of drug resistance in MTB clinical isolates

machine-learning svm prediction vcf diagnostics shell-script caret variant-calling samtools bwa-mem r-programming whole-genome-sequencing trimgalore multi-class-classification freebayes mycobacterium-tuberculosis drug-resistance-prediction

Updated Jan 30, 2024
Shell

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