CLC AssemblyCell - The-Bioinformatics-Group/Albiorix GitHub Wiki

Commands(s):

• clc_adapter_trim
• clc_agp_join
• clc_assembler
• clc_assembler_long
• clc_cas_to_sam
• clc_cell_licutil
• clc_change_cas_paths
• clc_convert_sequences
• clc_correct_pacbio_reads
• clc_extract_consensus
• clc_filter_matches
• clc_find_variations
• clc_join_mappings
• clc_mapper
• clc_mapper_legacy
• clc_mapping_info
• clc_mapping_table
• clc_overlap_reads
• clc_quality_trim
• clc_remove_duplicates
• clc_sample_reads
• clc_sam_to_cas
• clc_sequence_info
• clc_sort_pairs
• clc_split_reads
• clc_submapping
• clc_unmapped_reads
• clc_unpaired_reads

Installed in:

/state/partition3/CLC-AssemblyCell/clc-assembly-cell-* on "node0".

The latest installed version (2016-05-01) is /state/partition3/CLC-AssemblyCell/clc-assembly-cell-5.0.0-linux_64

Notes:

High on disk I/O. Therefore, move your data to one of the directories in /state/partition* on node0 before you run an analysis. Version 5.0 of the package alos have support for PacBio reads.