mkdir -p fastk_benchmark/data
mkdir -p fastk_benchmark/tmpfiles
cd fastk_benchmark/data
aws s3 cp --recursive s3://genomeark/species/Micronycteris_microtis/mMicMic1/genomic_data/pacbio_hifi/
# here is the directory for the 3 files if aws is not a viable option for download: https://genomeark.s3.amazonaws.com/index.html?prefix=species/Micronycteris_microtis/mMicMic1/genomic_data/pacbio_hifi/
cd ..
conda create -n fastk
conda activate fastk
conda install fastk
FastK -k21 -T31 -NmMicMic1 -v -Ptmpfiles data/m64326e_220621_175224.hifi_reads.fastq.gz data/m64326e_220623_033843.hifi_reads.fastq.gz data/m64326e_220627_202742.hifi_reads.fastq.gz
Created
November 2, 2023 20:14
-
-
Save abueg/892e640785408e16acea2d2f6c7fbbad to your computer and use it in GitHub Desktop.
fastk_commands
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment