Bioinformatics Library for Integrated Tools

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Documentation for package ‘blit’ version 0.1.0

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allele_counter Run alleleCount
arg Deliver arguments of command
cellranger Run cellranger
cmd_background Execute command
cmd_envpath Define the environment when running the command
cmd_envvar Define the environment when running the command
cmd_help Execute command
cmd_run Execute command
cmd_wd Define the environment when running the command
Command R6 Class to prepare command parameters
exec Invoke a System Command
fastq_pair FASTQ PAIR
fastq_read_pair FASTQ PAIR
gistic2 Run GISTIC2
kraken2 Running Kraken2
kraken_tools KrakenTools is a suite of scripts to be used alongside the Kraken, KrakenUniq, Kraken 2, or Bracken programs.
make_command Helper function to create new command
perl Perl is a highly capable, feature-rich programming language with over 36 years of development.
pyscenic Run pyscenic
python Python is a programming language that lets you work quickly and integrate systems more effectively.
seqkit Run seqkit
trust4 TRUST4: immune repertoire reconstruction from bulk and single-cell RNA-seq data
trust4_gene_names TRUST4: immune repertoire reconstruction from bulk and single-cell RNA-seq data
trust4_imgt_annot TRUST4: immune repertoire reconstruction from bulk and single-cell RNA-seq data