Trim Galore! specifications

Information


Unique identifier OMICS_01096
Name Trim Galore!
Software type Application/Script
Interface Command line interface
Restrictions to use None
Biological technology Illumina
Operating system Unix/Linux
Programming languages Perl
License GNU General Public License version 2.0
Computer skills Advanced
Version 0.4.5
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Felix Krueger <>

Additional information


https://github.com/FelixKrueger/TrimGalore/blob/master/Docs/Trim_Galore_User_Guide.md

Trim Galore! article

Trim Galore! citations

 (40)
2018
PMCID: 5892119

[…] above but omitting the size selection by denaturing urea polyacrylamide gel electrophoresis., the assessment of the quality of each sequencing library read was conducted using fastqc. the program trim galore was used with base settings to trim adapter sequences from reads and to filter out low phred score reads (<20). short-length reads were preserved. reads from each replicate […]

2018
PMCID: 5816637

[…] quality control visualization and analysis (adapter and quality trimming) was performed using fastqc version 0.11.2 (http://www.bioinformatics.bbsrc.ac.uk/projects/fastqc/) and trim_galore version 0.4.1 (http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/), respectively. reads were mapped to the genome of vibrio cholerae 01 biovar el tor str. n16961 (refseq, […]

2018
PMCID: 5788912

[…] raw reads passed quality filtering. briefly, the quality of the raw reads was assessed using fastqc (http://www.bioinformatics.babraham.ac.uk/projects/fastqc), and low qualities were filtered out by trim galore (http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/). tiltered reads were mapped to reference genome using tophat; gene assembly and differential gene expressions […]

2018
PMCID: 5788746

[…] strain were sequenced across a single lane of an illumina hiseq2500 using a 250 bp paired-end read metric. fastqc was used to check the quality of the raw reads obtained [19] and reads trimmed using trim galore [20]. in initial attempts to estimate gene copy number the reads of each strain were mapped to the reference genome (sequenced from an inbred line derived from a strain collected […]

2018
PMCID: 5760651

[…] ipswich, ma, usa). libraries were sequenced on the illumina hiseq 2500 instruments, with 30 million 2 × 50 bp paired reads., for chip-seq analysis, reads were quality and adapter trimmed using ‘trim_galore’ before aligning to human genome assembly hg19 with bwa mem using the default parameters. aligned reads with the same start position and orientation were collapsed to a single read […]

Trim Galore! institution(s)
TNLIST/Department of Automation, Tsinghua University, Beijing, China

Trim Galore! review

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yinhz0626

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Desktop
very good software