.callbinary | Make system call for binaries |
adapterremoval_usage | Print available arguments for adapterremoval |
adapterremoval_version | Print version information of adapterremoval |
bowtie2 | Interface to bowtie2 of bowtie2-2.2.3 |
bowtie2-build | Interface to bowtie2-2.4.4 build function |
bowtie2_build | Interface to bowtie2-2.4.4 build function |
bowtie2_build_usage | Print available arguments that can be passed to bowtie2_build() |
bowtie2_samtools | Interface to bowtie2-2.4.4 align function |
bowtie2_usage | Print available arguments that can be passed to bowtie2() |
bowtie2_version | Print version information of bowtie2-2.4.4 |
checkFileCreatable | Check if file is creatable |
checkFileCreateable | Check if file is creatable |
checkFileExist | Check if file exists |
checkIndexType | Determine bowtie2 index type |
checkPathExist | Check if path exists |
checkSamtoolsExists | Check if samtools exists on the system |
identify_adapters | identify adapters for paired-end reads |
remove_adapters | Interface to bowtie2 of adapterremoval-2.2.1a |