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somatic_variants_calling Public
Somatic variants calling pipeline using Mutect2, CNV_FACETS, PCGR, ANNOVAR, Delly, and Manta.
Shell UpdatedDec 5, 2025 -
clinical_rna_fusion Public
Detecting RNA fusions using Arriba and STARfusion
Shell UpdatedDec 1, 2025 -
enrichment-pipeline Public
Forked from AlbertoTh98/Enrichment-PipelineAutomatic R pipeline for FGSEA and classic enrichment (GO, KEGG, Reactome, Hallmark)
R UpdatedSep 15, 2025 -
tcga_chol_methylation_array_analysis Public
Forked from prakashsah1/TCGA_CHOL_Methylation_Array_AnalysisMIT License UpdatedJul 14, 2025 -
250224_DFSP_WES Public
Genomic profiling of fibrosarcomatous transformation (FST) of DFSP
Shell UpdatedJun 11, 2025 -
tsg_biallelic Public
Forked from reznik-lab/tsg_biallelicPublic repo for biallelic project
R UpdatedMay 7, 2025 -
Intro-to-bulk-RNAseq Public
Forked from hbctraining/Intro-to-bulk-RNAseqIntroduction to bulk RNA-seq
HTML UpdatedMay 2, 2025 -
somaticseq Public
Forked from bioinform/somaticseqAn ensemble approach to accurately detect somatic mutations using SomaticSeq
Python BSD 2-Clause "Simplified" License UpdatedApr 16, 2025 -
tempo Public
Forked from mskcc/tempoCCS research pipeline to process WES and WGS TN pairs
Groovy UpdatedApr 8, 2025 -
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learning-bioinformatics-at-home Public
Forked from harvardinformatics/learning-bioinformatics-at-homeresources for learning bioinformatics
MIT License UpdatedJan 8, 2025 -
Best-practices-for-R-on-HPC Public
Forked from hpcleuven/Best-practices-for-R-on-HPCThis repository contains the training material for the VSC training about using R on HPC infrastructures
R Creative Commons Attribution 4.0 International UpdatedDec 3, 2024 -
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KEAP1-mutLOH-prime-editing-sensor Public
Forked from samgould2/KEAP1-mutLOH-prime-editing-sensorPrime editing sensor library generation & analysis
Jupyter Notebook UpdatedJul 31, 2024 -
tronflow-mutect2 Public
Forked from TRON-Bioinformatics/tronflow-mutect2Nextflow pipeline for Mutect2 somatic variant calling best practices
Nextflow MIT License UpdatedJun 14, 2024 -
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RNAseq_RSEM_tutorial Public
Forked from Han-Cao/RNAseq_RSEM_tutorialTutorial for RNA-seq analysis using RSEM
HTML UpdatedApr 22, 2024 -
bioinformatics Public
Forked from ossu/bioinformatics🔬 Path to a free self-taught education in Bioinformatics!
UpdatedApr 8, 2024 -
applied-computational-genomics Public
Forked from quinlan-lab/applied-computational-genomicsApplied Computational Genomics Course at UU: Spring 2020
HTML Creative Commons Attribution Share Alike 4.0 International UpdatedApr 5, 2024 -
hbca Public
Forked from MarioniLab/hbcaCode used to process the data of the HBCA project
R UpdatedFeb 9, 2024 -
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2023_Arevalo_BatchCorrection Public
Forked from carpenter-singh-lab/2023_Arevalo_NatComm_BatchCorrectionEvaluating batch correction methods for image-based cell profiling
Jupyter Notebook BSD 3-Clause "New" or "Revised" License UpdatedAug 25, 2023 -
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DIYtranscriptomics.github.io Public
Forked from DIYtranscriptomics/DIYtranscriptomics.github.ioThe website for a semester-long 'do-it-yourself' (DIY) transcriptomics course
HTML Other UpdatedAug 4, 2023 -
awesome-single-cell Public
Forked from seandavi/awesome-single-cellCommunity-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
MIT License UpdatedAug 3, 2023
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