Sentence examples for toolkit to remove from inspiring English sources

Data analysis: The reads were processed using the fastx toolkit to remove low quality reads and trim low quality bases.

Raw reads were first processed with the FASTX-Toolkit to remove the reads of low quality (phred quality < 5).

The Illumina HiSeq 2000 system-generated 120 bp raw PE reads were first processed by the FASTX-Toolkit to remove the reads with sequencing adaptors and of low quality (phred quality <5).

Data were processed using Fastq clipper from the FASTX Toolkit 0.0.13 to remove the adaptor sequence and all reads shorter than 25 nucleotides were discarded.

The row data were preprocessed by the Fastx-toolkit pipeline to remove low quality reads and clip adapter sequences.

Fastx Toolkit was used to remove the 3′-adapter sequence, demultiplex, and remove the 6-mer barcode sequence.

Based on those results, tools in the fastx toolkit were used to remove Illumina adapters, performing end trimming of reads, as well as filtering reads out of the dataset that had average quality values < 30 (sup. Figure  1).

Sequenced 100 nt reads were processed using the Fastx toolkit and processed to remove the adaptor sequence used in library construction, low quality sections of each read, and any reads of uniformly low quality.

The NGS QC Toolkit was used to remove the pair-end reads containing Ns or those where the number of bases whose PHRED-like score was less than 20 exceeded 10%.

The reads from the fastq file were firstly collapsed (fastx_collapser from the fastx toolkit [ 97] to remove exact duplicate reads thus reducing the sequence number and a fasta file was produced. Then, ribokliper [ 98] (BLAT as aligner) was used to identify contaminant RNAs.

Sequence reads from each library were quality controlled with the ea-utils and fastx toolkit in order to remove low quality reads and residual adaptor sequence (Gordon and Hannon 2010; Aronesty 2011)(Workflow deposited at https://github.com/behrimg/Scripts/blob/master/Hall_Projects/Pombe/MA_Pipeline.txt).txt