Marie

robustness function, random error

15

Thank you for providing this nice R package. I want to calculate my network (igraph) robustness and vulnerability. When I run the robustness function with degree and betweeness centrality measures,...

Hey, thank you so providing and maintaining mmseq2. I have the following workflow question. Let's assume I have - A 75 GB nucleotide database (x.fna) clustered (95% threshold) with a...

bowtie2 index generates only tmp files

1

I am running ```bowtie2-build ref.fna ref --threads 12 --large-index``` with no error message. However, the command generates only temporary output files and no .rev files. Log: ``` Settings: Output files:...

## Expected Behavior The functional annotation of representative sequences (75 GB) in a FASTA file with eggNOG and PFAM. ## Current Behavior I started with the eggNOG annotation, which is...

I am trying to install FactoMineR with ``` if(!require(devtools)) install.packages("devtools") devtools::install_github("kassambara/factoextra") ``` The installation process is unsuccessful, see: ``` Downloading GitHub repo kassambara/factoextra@HEAD These packages have more recent versions available....

Hi, many thanks for the PyTorch implementation of the DGCNN. Do you have a python implementation (instead of the Matlab script) to generate the input text file from the individual...

repeat_database for complex metagenomics data?

1

Hi, can I use Transposome for annotating transposable elements from paired-end metagenomics data of complex microbial communities? If so, what would be the repeat_database in the config file? Thanks!

Many thanks for deepgraph! The approach for computing large correlation matrices in parallel is great! 1. How can I adjust the code to get a final output with four columns,...

Hi, thanks for the constantly expanding stellargraph library! ### Description I am looking for wa feature to obtain node/link/subgraph importance for stellargraph-based supervised graph classification tasks. ```stellargraph.interpretability.saliency_maps``` does not seem...

sensitivity options, definition

1

Hi, can you guide me where I find a more detailed definition of the parameters included for sensitivity options: ``` --fast, --mid-sensitive, --sensitive, --more-sensitive, --very-sensitive and --ultra-sensitive. ``` So, what...