SpiecEasi
SpiecEasi copied to clipboard
zdk123
Sparse InversE Covariance estimation for Ecological Association and Statistical Inference
Hello, I am a first time user of this package. I am reading in two csv files to create a phyloseq object that I want to run this package on....
If I am starting with a relative abundance table (I don't have raw counts), I wanted to run Spiec-Easi in multiple steps, so that I can use my relative abundance...
According to the paper (PLoS Comput Biol, 2015), input table must be non-normalized raw OTU table, I have question about that whether I use a pre-filtered OTU table based on...
**Hello, I am running the tutorial for the -Analysis of American Gut data-. When I transform the adjacency matrices to the igraph object, the session aborts immediately. This happens only...
I contructed the next network with my data with the R package  I read several articles that is possible to add the positive or negative associations between the nodes,...
Hi! I was wondering if it is possible to incorporate environmental metadata into an analysis with spieceasi - it seems this would be quite important for getting an accurate network...
Hello, I am able to run spiec.easi() on a phyloseq object derived from a raw abundance matrix: `net.c
Hello, I am having trouble installing SpiecEasi. I have MASS, pulsar, and huge. Are there other dependencies I'm missing? I am working on a MacOS 12.6. The errors I am...
Hi there, I'm trying to run a cross-domain analysis using ITS2 data (2 fungal taxa) and 16s data, using: spiec_result_gr1
As title suggests, whenever I run this, I encounter crashing issues. I can start a fresh session and do as follows library(SpiecEasi) library(phyloseq) ps.obj
