marker-gene-analysis

There are 1 repository under marker-gene-analysis topic.

nsalomonis / altanalyze
AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-use precompiled graphical user-interface versions available from our website.
rna-seq-data alternative-splicing scrna-seq-data bioinformatics-pipeline clustering pathway-analysis network-analysis splicing-quantification splicing-visualization python fastq-anaysis bam-files single-cell-splicing cell-cycle cell-type-classification marker-gene-analysis graphical-interface command-line-tool pagerank louvain-community-detection
Language:Python 91
Russel88 / DAtest
Compare different differential abundance and expression methods
microbiome rnaseq relative-abundances compare-methods differential-abundance-methods otu marker-gene-analysis 16s proteomics metabolomics metagenomics differential-expression auc false-positive-control
Language:R 48
steineggerlab / ufcg
UFCG: Universal Fungal Core Genes
bioinformatics fungi genomics marker-gene-analysis phylogenetics
Language:Java 26
mikemc / metacal
Metagenomics calibration R package
metagenomics amplicon-sequencing r-package marker-gene-analysis microbiome-analysis
Language:R 17
itsmisterbrown / microfiltR
accessory functions for processing microbial community data
16s 18s marker-gene-analysis microbiome microbiome-analysis phyloseq
Language:R 12
wshuai294 / PStrain
Pstrain profiles strains in metagenomics data. It infers strain abundance and genotype for each species. Also, it has a single species mode; where given a BAM and VCF, it can phase the variants for any species.
strain phase metagenomics-toolkit profile-strains metaphlan3 genotype-frequency marker-gene-analysis metagenotyping snp microbial-strain
Language:Shell 8
mikemc / mgs-bias-manuscript
Analysis for McLaren, Willis, and Callahan (2019)
amplicon-sequencing marker-gene-analysis metagenomics microbiome reproducible-research
Language:R 4
jungsoh / high-throughput-sequence-data-handling-course
Material used for a course on handling high-throughput genomic data handling, covering DNA sequence assembly, RNA-seq data analysis, metagenomics, and read alignment
high-throughput-sequencing sequence-assembly rna-seq-analysis marker-gene-analysis metagenomic-analysis read-alignment
Language:HTML