fastspar
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scwatts
Rapid and scalable correlation estimation for compositional data
Please, add an ability to process `.csv` and `.biom`, as they are used quite commonly in the field for data representation. Thank you for such an elegant piece of software!
Hi, Thanks for creating fastspar, very useful and easy to use! I was having some trouble with writing/reading from files that are in a directory different from where fastspar was...
Dear authors, We are trying to run the fastspar command with the thread options but it is still running in one single thread. Do you a way to circumvent that...
Hello Stephen. I am a beginner in constructing microbial networks. I want to create microbial networks using these thresholds: r > 0.8, p < 0.05. I used Fastspar to generate...
Hello, I encountered an error while creating the bootstrap counts: _fastspar_bootstrap: error while loading shared libraries: libmkl_rt.so.2: cannot open shared object file: No such file or directory_ I installed the...
Hi, thank you for developing such a useful software. I am a bit confused whether sparcc can be used for the calculation of species correlation between non-independent samples, e.g. time...
Thank you very much for your excellent work, which has solved the issue of SparCC running slowly. However, I encountered some problems when running FastSpar with my own dataset, and...
Hello, Thank you for the excellent fastspar tool. For our methods section, I have three quick questions about fastspar_pvalues: 1. One-sided vs. Two-sided: Are the calculated p-values one-sided or two-sided...
(fastspar_env) root@LAPTOP-RCQ2QTQ1:/mnt/e/zby/JJ/fastspar# python /mnt/e/zby/jj/fastspar/fastspar.py Running command: fastspar_bootstrap --otu_table /mnt/e/zby/jj/fastspar/fake_data.tsv --number 1000 --prefix /mnt/e/zby/jj/fastspar/output/bootstrap_counts/fake_data Error running command: fastspar_bootstrap --otu_table /mnt/e/zby/jj/fastspar/fake_data.tsv --number 1000 --prefix /mnt/e/zby/jj/fastspar/output/bootstrap_counts/fake_data Segmentation fault (core dumped) Dear Scwatts, thanks...
