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16s_tools

Tools to process files related to 16S amplicon sequencing data.

1dcnn-scorecam

Application of score-weighted class activation mapping on one dimensional CNN

adaptive-importance-sampling-bn

Experimental code: adaptive importance sampling for bayesian networks. -- I think I may have broken this code.

ancom

R scripts for Analysis of Composition of Microbiomes (ANCOM).

ancom_lefse_comparison

Comparing ANCOM and LEfSe for differential abundance testing.

biocyjs

biotextgraph

R library to make a summarized visualization of textual information by network

blog

bootreason

Bootstrap probabilistic reasoning of Bayesian network

cam-uncertainty

cbnplot

Bayesian network plot for the enrichment analysis results

ccdralgorithm

Structure learning for Bayesian networks using the CCDr algorithm.

ckegg

Command line tool to examine KEGG PATHWAY

clusterlayouts

Network layouts using the cluster information

compare_sign

cpbnplot

Bayesian network plot for the enrichment analysis results

cvopt

Populate CheckV results

cyjs-biological-pathway

Visualizing gene regulatory networks with pathway information by Cytoscape.js

cyjs_test

testing the Cytoscape.js

edgebundle

R package implementing edge bundling algorithms

geomtextpath

Create curved text paths in ggplot2

gget

🧬 gget enables efficient querying of genomic reference databases

ggkegg

Analyzing and visualizing KEGG information using the grammar of graphics

ggraph

Grammar of Graph Graphics

ggsc

ggspavis

Visualization functions for spatially resolved transcriptomics data

ggwordcloud

A word cloud geom for ggplot2

glomerulus-clustering

graphhighlight

highlight nodes and edges of ggraph plot

metagenome-pipeline

Shotgun metagenomic sequences processing pipeline