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count-matrix

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epigen / spilterlize_integrate

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A Snakemake workflow and MrBiomics module to split, filter, normalize, integrate and select highly variable features of count matrices resulting from experiments with sequencing readout (e.g., RNA-seq, ATAC-seq, ChIP-seq, Methyl-seq, miRNA-seq,...) including diagnostic visualizations.

visualization workflow bioinformatics rna-seq snakemake integration pipeline ngs dimensionality-reduction chip-seq atac-seq normalization biomedical-data-science batch-effect count-matrix
  • Updated Nov 12, 2024
  • Python

FarhanaRiaz123 / Pangenome-Analysis

Star 3

Pangenome-Analysis.py is written for extraction of core, accessory and unique genomes (Gene families and proteins) along with filtration of single copy orthologues, creation of binary and count matrices as well as removal of duplicates.

bioinformatics annotation clustering biology gene-families bioinformatics-analysis proteome-clustering downstream-analysis orthomcl pangenome singletons plasmodium duplicates-removal gene-family binary-matrix accessory-genes coregenome pangenome-inference pangenome-pipeline count-matrix
  • Updated Feb 21, 2022
  • Python

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