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Associated diseases

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IMonitor specifications

Information


Unique identifier OMICS_09786
Name IMonitor
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input format fastq/fasta
Output data clonotype table, various reports
Biological technology Illumina
Operating system Unix/Linux
Programming languages C++, Perl, R
Computer skills Advanced
Stability Stable
Maintained Yes

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Documentation


Maintainer


  • person_outline Xiao Liu <>

Publication for IMonitor

IMonitor in publications

 (6)
PMCID: 5559085
PMID: 28813462
DOI: 10.1371/journal.pone.0182733

[…] sequencing strategy with 100 bp length was adopted to capture the entire cdr3 of tcr and bcr using illumina hiseq 2000 platform. the sequencing raw data was processed using our self-developed tool, imonitor []. specifically, the imonitor pipeline contains an error correction step to reduce the impact of the pcr and sequencing errors on the downstream analysis as much as possible []. in brief, […]

PMCID: 5504616
PMID: 28693542
DOI: 10.1186/s12896-017-0379-9

[…] years different tools and strategies have been developed for immune repertoire analysis, of which some have been summarized in previous reviews [, , –]. other methods, such as imseq [], tcrklass, imonitor [], lymanalyzer [] and rtrc [], have however emerged since. a popular tool is mixcr (previously mitcr), developed by bolotin et al. [], which allows for a highly customizable analysis […]

PMCID: 5133416
PMID: 27933206
DOI: 10.1136/rmdopen-2016-000302

[…] patients determine their own treatment targets and can view the evaluations. physicians add blood test results, and nurses decide whether patients need urgent visits on the basis of monthly alerts., imonitor is a web-based software application that allows patients to report information about their disease state for ra, psa and as. it can be accessed by pc, tablet or smartphone. data […]

PMCID: 5048610
PMID: 27757113
DOI: 10.3389/fimmu.2016.00403

[…] then the sequencing libraries were sequenced with standard 2 × 150 paired end reads on illumina hiseq2500 platform., sequencing data were analyzed by the tcr and bcr repertoire analyzing pipeline imonitor (). about 2–5 million mapped reads (include correct v and j genes) remained after the above pipeline for each sample, and we used a random subset of 2 million mapped reads for continued […]

PMCID: 5010241
PMID: 27588755
DOI: 10.1371/journal.pone.0161801

[…] after which they were ligated to mi-seq adaptors for library preparation. final products were run on a mi-seq sequencer to generate 2 ×300-bp paired-end reads., sequence data were analyzed by imonitor [], a pipeline we previously developed for analyzing ir data. high-quality paired reads were merged into contigs using an accurate read connection tool called connecting overlapped pair-end […]


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IMonitor institution(s)
BGI-Shenzhen, Shenzhen, China

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