Man pages for tzina97/netMHCpanW
Interface to 'NetMHCpan'
| capitalize_first_char | Convert the first character to upper case. |
| check_alleles | Check the allele names |
| check_can_create_file | Check that a file can be created at a certain path. |
| check_fasta_file_sequence_lengths | Check the lengths of the sequences in a FASTA file |
| check_netmhcpan_bin_url | Check the URL of the NetMHCpan binary tarball |
| check_netmhcpan_data_url | Check the URL of the NetMHCpan binary tarball |
| check_netmhcpan_installation | Checks the installation of NetMHCpan. |
| create_temp_fasta_filename | Create a '.fasta' file |
| create_temp_xls_filename | Create a '.xls' file |
| default_params_doc | This function does nothing. It is intended to inherit is... |
| download_netmhcpan_bin | Download the NetMHCpan binary |
| get_default_netmhcpan_bin_path | Get the full path to the default NetMHCpan binary |
| get_default_netmhcpan_bin_tarfile_path | Get the default path for the NetMHCpan binary tarball file |
| get_default_netmhcpan_folder | Get the path to the folder where this package installs... |
| get_default_netmhcpan_subfolder | Get the full path to the NetMHCpan sub-folder |
| get_default_netmhcpan_version | Get the default NetMHCpan version used |
| get_netmhcpan_alleles | Get a list of the alleles supported by NetMHCpan |
| get_netmhcpan_archive_filename | Get the filename of the NetMHCpan archive file |
| get_netmhcpan_bin_url | Get the NetMHCpan binary download URL. |
| get_netmhcpan_data_url | Get the NetMHCpan data tarball URL. |
| get_netmhcpan_url | Deprecated, use get_netmhcpan_bin_url instead |
| install_netmhcpan | Install NetMHCpan |
| install_netmhcpan_bin | Install the NetMHCpan binary to a local folder |
| install_netmhcpan_bin_from_file | Install the NetMHCpan binary to a local folder |
| install_netmhcpan_data | Install the NetMHCpan data to a local folder |
| install_netmhcpan_data_from_file | Install the NetMHCpan data from file |
| install_netmhcpan_from_files | Install NetMHCpan from files. |
| is_netmhcpan_bin_installed | Measure if NetMHCpan binary is installed locally |
| is_netmhcpan_data_installed | Measure if NetMHCpan data folder is installed locally |
| is_netmhcpan_haplotype | Is the haplotype valid? |
| is_netmhcpan_installed | Measure if NetMHCpan is installed locally |
| is_netmhcpan_set_up | Measure if NetMHCpan is set up |
| is_on_travis | Determines if the environment is Travis CI |
| is_tcsh_installed | See if tcsh is installed |
| is_url_valid | Is the download URL valid? |
| netmhcpan | netMHCpan: predict peptide binding strengths using NetMHCpan |
| netmhcpan_report | Create a 'netmhcpan' report, to be used when reporting bugs |
| netmhcpan_self_test | Test NetMHCpan |
| predict_ic50 | Predict the IC50 for peptides. |
| predict_ic50s | Predict the IC50s from a sequence |
| read_netmhcpan_xls_output | Read MHCpan output |
| run_netmhcpan | Run NetMHCpan |
| set_up_netmhcpan | Install the NetMHCpan binary to a local folder |
| to_netmhcpan_name | Convert a formal haplotype name to its NetMHCpan notation |
| uninstall_netmhcpan | Uninstall NetMHCpan |
