parameters.R
In momeara/CalCEN: CalCEN: Estimate Co-Expression Networks
# Candida albicans
ncbi_taxon <- "5476"
base_dir <- "/home/maom/opt/ca_coexp"
# where raw and processed sequence data is stored
scratch_dir <- "/scratch/maom_root/maom99/maom/CalCEN"
# cluster scratch used for computing expression profiles
expression_scratch_dir <- "/scratch/maom_root/maom99/maom"
bowtie2_path <- "/home/maom/opt/bowtie2-2.3.4.1-linux-x86_64"
fastq_dump_program <- "/home/maom/opt/bin/fastq-dump"
rsem_calculate_expression_program <- "/home/maom/opt/RSEM/rsem-calculate-expression"
candida_genome_assembly <- "C_albicans_SC5314_version_A22-s07-m01-r57"
reference_genome_path <- "/scratch/maom_root/maom99/maom/CalCEN/reference_genome/SC5314_reference"
crossmap_path <- "/home/maom/opt/crossmap"
cluster_type <- "SLURM"
slurm_account <- "maom99"
slurm_mail_user <- "maom@umich.edu"
slurm_partition <- "standard"
momeara/CalCEN documentation built on Jan. 3, 2023, 7:22 p.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
# Candida albicans
ncbi_taxon <- "5476"
base_dir <- "/home/maom/opt/ca_coexp"
# where raw and processed sequence data is stored
scratch_dir <- "/scratch/maom_root/maom99/maom/CalCEN"
# cluster scratch used for computing expression profiles
expression_scratch_dir <- "/scratch/maom_root/maom99/maom"
bowtie2_path <- "/home/maom/opt/bowtie2-2.3.4.1-linux-x86_64"
fastq_dump_program <- "/home/maom/opt/bin/fastq-dump"
rsem_calculate_expression_program <- "/home/maom/opt/RSEM/rsem-calculate-expression"
candida_genome_assembly <- "C_albicans_SC5314_version_A22-s07-m01-r57"
reference_genome_path <- "/scratch/maom_root/maom99/maom/CalCEN/reference_genome/SC5314_reference"
crossmap_path <- "/home/maom/opt/crossmap"
cluster_type <- "SLURM"
slurm_account <- "maom99"
slurm_mail_user <- "maom@umich.edu"
slurm_partition <- "standard"
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.