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Bash-tips-tricks Public
Tips and tricks (mainly for comp. gen.) in the Bash language
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radiation_paper Public
Scripts associated with our radiation manuscript (https://doi.org/10.1101/2022.07.29.501997)
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SV-simulation-nf Public
Nextflow pipeline to simulate structural variations in long reads sequencing data
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SKATmutQTL-nf Public
Run the SKAT-O rare variant method for the mutQTL identification
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curriculum Public
Repository for my latex CV based on awesome-CV from @posquit0
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fastqc-nf Public
Nextflow pipeline for fastqc
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LiftOver-nf Public
Forked from IARCbioinfo/LiftOver-nfConvert BED/VCF files between two genomes with nextflow
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vcf_ancestry-nf Public
Nextflow pipeline that filters a VCF on a given ancestry from a PCA on 1000 genomes
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RegionalEnrichment-nf Public
Nextflow pipeline to conduct mutational regional enrichment analysis
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hyperstack Public
Nextflow pipeline to run the intercept method on needlestack calling with a step of FDR computation with ML
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SimulateLowCovSeq-nf Public
Nextflow pipeline to simulate low coverage WES from existing BAM files and call/annotate variants with Strelka2
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SNV_clusters_sig-nf Public
Compute mutational signatures from clusters of SNVs
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S2_FPDB-nf Public
Run a strelka2 variant calling from public data bases, with a step of BAM downloading
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NMF_VCF-nf Public
nextflow pipeline extracting mutational signatures from VCF files
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samtools-merge-nf Public
Merge BAM files using samtools
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alignment4lanes-nf Public
Forked from IARCbioinfo/alignment-nfWhole Exome/Whole Genome Sequencing alignment pipeline
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Lesson-Notes Public
Repository containing notes from lessons in field of statistics, bioinformatics or even molecular biology
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SNPs-PRS Public
nextflow pipeline to compute PolygenicRiskScores for driver genes
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variantfiltering-nf Public
nextflow pipeline to perform variant filtering on NGS data
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strelka2-nf Public
Forked from IARCbioinfo/strelka2-nf -
pyclone_clonevol_analysis Public
Intra-tumor heterogeneity analysis with pyclone and clonevol
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R scripts to filter variants from germline needlestack calling
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CancerGenomicsCloud_tutorial Public
Tutorial for the sevenbridges cancer genomics cloud
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