BBTools for bioinformatician !
...,nextera.fa.gz" and get them all (this will increase the amount of overtrimming, though it should still be ne...BBDuk.sh BBDuk can operate in one of 4 kmer-matching modes:Right-trimming (ktrim=r), left-trimming (ktr...2271 days ago
CANU genome assembly parameters !
...ter correction, trim and split based on consensus evidence. *.trimmedReads.fastq : file containing the sequences after correction and final trimming *.layout : file contain...1945 days ago
3234 days ago
Trimmomatic: A flexible read trimming tool for Illumina NGS data
Paired End: java -jar trimmomatic-0.35.jar PE -phred33 input_forward.fq.gz input_reverse.fq.gz output_forward_paired.fq.gz output_forward_unpaired.fq.gz output_reverse_...2942 days ago
Genome Assembly Tools and Software - PART2 !!
...between contigs. Lucy 2.20 – DNA Sequence Quality & Vector TrimmingLucy has been used for se...rior to sequence assembly and other downstream uses. The quality trimming portion of lucy makes use of...2686 days ago
2714 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...data (.fastq, BAM, SAM), microarrays (Affymetrix, Illumina) and text files Supports custom genome builds and annotation databases Performs base trimming, alignment, quantification, q...2909 days ago
3919 days ago
Installing Porechop on Ubuntu !
...on] Porechop: a tool for finding adapters in Oxford Nanopore reads, trimming them from the ends and split...p extend (default: 3,-6,-5,-2) End adapter settings: Control the trimming of adapters from read ends...2106 days ago
2075 days ago
Comment on "nanofilt: Filtering and trimming of long read sequencing data"
Nanofilt steps https://gigabaseorgigabyte.wordpress.com/2017/06/05/trimming-and-filtering-oxford-nanopore-sequencing-reads/2040 days ago
Comment on "Installing Porechop on Ubuntu !"
...(forward) 75.0 76.9 Barcode 93 (forward) 76.0 80.0 Barcode 94 (forward) 75.0 76.0 Barcode 95 (forward) 80.0 80.8 Barcode 96 (forward) 79.2 76.0 Trimming adapters from read ends SQK-N...2106 days ago