CLC Assembly Cell statistics

info info

Citations per year

info

Popular tool citations

chevron_left Genome assembly Read alignment chevron_right
info

Tool usage distribution map

Tool usage distribution map
info info

Associated diseases

Associated diseases
Want to access the full stats & trends on this tool?

Protocols

CLC Assembly Cell specifications

Information


Unique identifier OMICS_19504
Name CLC Assembly Cell
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use License purchase required
Output data A set of contig sequences or a file in a special format called cas.
Output format FASTA
Operating system Unix/Linux, Mac OS, Windows
Computer skills Advanced
Version 5.0.4
Stability Stable
Maintained Yes

Taxon


  • Bacteria
    • Escherichia coli
  • Invertebrates
    • Caenorhabditis elegans
  • Primates
    • Homo sapiens
  • Vertebrates
    • Danio rerio

Subtool


  • CLCbio

Versioning


No version available

Additional information


http://resources.qiagenbioinformatics.com/manuals/clcassemblycell/current/index.php

CLC Assembly Cell citations

 (840)
call_split

Draft Genome Sequence of a Novel Rhabdovirus Isolated from Deinocerites Mosquitoes

2018
PMCID: 5946037
PMID: 29748415
DOI: 10.1128/genomeA.01438-17
call_split See protocol

[…] software, on the set of 287 million sequence reads (). after subtraction of sequences with an alignment to culicidae and human sequences in genbank, 90 million nonhost reads remained. using clc assembly cell (qiagen), pickaxe assembled the 78 million nonhost reads into 34,956 contigs that were subsequently annotated using a blast+/rapsearch pipeline (, )., a 14,420-nucleotide (nt) […]

library_books

Structural and functional dissection of differentially expressed tomato WRKY transcripts in host defense response against the vascular wilt pathogen (Fusarium oxysporum f. sp. lycopersici)

2018
PMCID: 5927432
PMID: 29709017
DOI: 10.1371/journal.pone.0193922

[…] of the solywrky33 and solywrky37 was done to find out the percent consensus and conserved residues along the length of the entire protein in different members using clc bio workbench http://www.clcbio.com. the functional domain region observed in each wrkys were scanned and explored using expasy-prosite (http://prosite.expasy.org/scanprosite/) []. the sequences were analyzed […]

library_books

Draft Genome Sequence of the First South South Korean Clinical Isolate of Burkholderia pseudomallei, H0901

2018
PMCID: 5920170
PMID: 29700157
DOI: 10.1128/genomeA.00336-18

[…] the sequencing platform. a total of 7,956,141 reads were obtained by whole-genome sequencing, and fold coverage was 235. finally, 142 contigs were assembled from all reads in clc genomic workbench (clcbio, version 10.0) using thresholds with a minimum of 500 bp (). the number of n50 contigs was 88,367. the draft genome of the h0901 strain consisted of 7,001,996 bp of nucleotides (g+c content, […]

library_books

Entomopathogenic fungal infection leads to temporospatial modulation of the mosquito immune system

2018
PMCID: 5933799
PMID: 29684026
DOI: 10.1371/journal.pntd.0006433

[…] the aforementioned oligonucleotide primers. resulting dna sequences were visually edited and assembled using sequencer 5.4 software (gene codes corporation). consensus sequences were aligned using clcbio genomics workbench 9.0 software (qiagen inc.). phylogenetic analysis was performed in mega 7 [] using the maximum likelihood method with a general time reversible model. the complete deletion […]

library_books

Characterization of Chicken Tumor Necrosis Factor α, a Long Missed Cytokine in Birds

2018
PMCID: 5913325
PMID: 29719531
DOI: 10.3389/fimmu.2018.00605

[…] vertebrate tnf-α genes were used as probes in blast searches of the sra datasets. the sequences obtained were downloaded and assembled manually either with clc genomics workbench 8.0.1 (www.clcbio.com) or with lasergene 10.0.0 (dnastar, madison, wi, usa). the resulting short contigs were used as probes in subsequent rounds of blast searches against sra datasets, until the full open […]

library_books

Integrated Characterization of MicroRNA and mRNA Transcriptome in Papillary Thyroid Carcinoma

2018
PMCID: 5911478
PMID: 29713312
DOI: 10.3389/fendo.2018.00158

[…] preprocessing of data were conducted on torrent server using torrent suite v4.4.2 software (life technologies, usa) and fastq files were generated and then exported for data analysis using clcbio genomics workbench v8.3 (clc bio, denmark). the manufacturer’s analysis pipeline for transcriptome sequencing was used for differential expression of mrna. briefly, the pipeline includes […]


Want to access the full list of citations?

CLC Assembly Cell reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review CLC Assembly Cell