CLC bio specifications
|Alternative name||CLC Genomics Workbench|
|Interface||Command line interface, Graphical user interface|
|Restrictions to use||License purchase required|
|Operating system||Unix/Linux, Mac OS, Windows|
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- person_outline CLC Genomics Workbench Team <>
#1 opened on 2017-10-29 by salvador_angel • 1 answer
The OMIC tools classification says that is CLI but it's main interface is actually GUI and the CLI is only used when you want to interface the Workbench CLient with the Workbench Server.
Hi Salvador! We have added the GUI as the interface of this tool, but also let the CLI to indicate this possibility. Best regards.
CLC bio citations(188)
[…] were selected, resulting in a total of 1,050,018 reads (303,493,887 bp). reads were first assembled into contigs using spades version 3.5.0 (8); then, the contigs were further manually joined using clc genomics workbench version 8 by alignment against reference genomes (genbank accession numbers cp000462 and cp005966). the assembled genomes were assessed using quast version 3.0 (9)., […]
[…] was sent for sequencing on the illumina miseq platform at the universidade católica de brasília (ucb)., the raw reads (6,862,788 million paired-end reads) were trimmed and de novo assembled using clc genomics workbench version 8.0. the resulting contigs were compared to the viral refseq database available in genbank using a blastx search (7) implemented in geneious version 9.1.5 (7). […]
[…] more than two ambiguous nucleotides were trimmed according to clc procedures. subsequently, adapter sequences were removed according to the illumina adapter list. rna-seq analysis was performed in clc genomics workbench 8.0 by mapping the trimmed reads to the tair10 arabidopsis reference genome sequence, under default settings. reads per kilobase (of exon) per million (rpkm) mapped reads […]
[…] site were crucial to retain the reads from each sample. following the sorting of reads to each individual sample, the 12 bp barcode on the 5′ end was trimmed and the reads were imported into the clc genomics workbench v9.0 (qiagen, boston, ma, usa). trimmed reads from each sample were mapped to the fragaria vesca genome v2.0.a1 (fvb)34. parameters for read alignment were set at a mismatch […]
[…] with a minimum coverage of 40–120-fold. we prepared libraries with the nextera xt dna sample preparation kit (illumina) and de novo assembled whole-genome sequence contigs for each strain by using clc genomics workbench version 7.5.1 (qiagen, valencia, ca, usa)., we initially investigated the position of the strains from spain and the united kingdom on the global phylogeny of v. […]