Illumina based assembly pipeline steps !
...CFTools, BEDTools; default for metagenomics data) Variant annotation (SnpEff, SnpSift) Consensus assessment report (QUAST) Lineage analysis (Pangolin) Clade assignment, mutation...920 days ago
920 days ago
946 days ago
Run Pango on your multifasta file !
...://cov-lineages.org/resources/pangolin/usage.html (base) [jnarayan@hn1 FASTA]$ conda activate pangolin (pangolin) [jnarayan@hn1 FAS.../home/jnarayan/anaconda3/envs/pangolin/lib/python3.8/site-packages/p.../home/jnarayan/anaconda3/envs/pangolin/lib/python3.8/site-packages/s...931 days ago
Palgoin installation return this warning ?
For Linux 64, Open MPI is built with CUDA awareness but this support is disabled by default.To enable it, please set the environment variable OMPI_MCA_opal_cuda_support=true beforelaunching your MPI processes. Equivalently, you can set the MCA parameter in the command line:mpiexec --mca opal_cu...Tags: Pangolin, Warning, Env, Conda
945 days ago
Tags: pangolin, lineage, tutorial, learn
920 days ago
Comment on "Update Pangolin !"
$ pangolin --updatepangolin updated to v3.1.16pangoLEARN updated to 2021-11-04946 days ago