bbduk program within bbtools (SourceForge net)
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SourceForge net
bbduk program within bbtools
Bbduk Program Within Bbtools, supplied by SourceForge net, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/bbduk+program/bbduk+trimmer/pm39526456-299-19-20
Average 90 stars, based on 1 article reviews
Bbduk Program Within Bbtools, supplied by SourceForge net, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/bbduk+program/bbduk+trimmer/pm39526456-299-19-20
Average 90 stars, based on 1 article reviews
bbduk program within bbtools - by Bioz Stars,
2026-10
90/100 stars
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Expressing:Article Title: Conservation of the moss RNA editing factor PPR78 despite the loss of its known cytidine-to-uridine editing sites is explained by a hidden extra target. Article Snippet: Cytidine (C)-to-uridine (U) RNA editing in plant organelles relies on specific RNA-binding pentatricopeptide repeat (PPR) proteins.. In the moss Physcomitrium patens, all such RNA editing factors feature a C-terminal DYW domain that acts as the cytidine deaminase for C-to-U conversion.. PPR78 of Physcomitrium targets 2 mitochondrial editing sites, cox1eU755SL and rps14eU137SL. Plasmid Preparation:Article Title: Conservation of the moss RNA editing factor PPR78 despite the loss of its known cytidine-to-uridine editing sites is explained by a hidden extra target. Article Snippet: Cytidine (C)-to-uridine (U) RNA editing in plant organelles relies on specific RNA-binding pentatricopeptide repeat (PPR) proteins.. In the moss Physcomitrium patens, all such RNA editing factors feature a C-terminal DYW domain that acts as the cytidine deaminase for C-to-U conversion.. PPR78 of Physcomitrium targets 2 mitochondrial editing sites, cox1eU755SL and rps14eU137SL. other:Article Title: The histone variant H3.14 is an early player in the abiotic stress response of Arabidopsis. Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Experimental models: Organisms/strains Arabidopsis: pHTR14::HTR14-GFP This paper N/A Arabidopsis: pUBI10::HTR14-GFP This paper N/A Arabidopsis: pHTR14::HTR14-Myc This paper N/A Arabidopsis: Col-0 (wild type) ABRC CS1093 Arabidopsis: pHTR14:HTR14:GFP x pHTR5::HTR5-RFP This paper N/A Arabidopsis: htr14-1(C), pHTR14:: HTR14-GFP in htr14-1 (htr14-1, SALK_019095C) This paper N/A Arabidopsis: htr14-1, SALKseq_019095C ABRC SALKseq_019095C Arabidopsis: htr14-2, GK-799B06-024973 ABRC GK-799B06-024973 Arabidopsis: hira-1 Nie et al. 39 N/A Arabidopsis: fas2–4 x pHTR14::HTR14-GFP This paper N/A Arabidopsis: hira-1 x pHTR14::HTR14-GFP This paper N/A Oligonucleotides Primers for molecular cloning see Table S2 This paper N/A Recombinant DNA Plasmids see Table S2 This paper N/A Software and algorithms ImageJ/FIJI version 2.1.0/1.54i Schindelin et al. 63 https://imagej.nih.gov/ij/ Rstudio version 2022.07.2 build 576 RStudio Team; Boston, USA https://rstudio.com R version 4.2.1 R Core team, Vienna, Austria https://www.R-project.org Adobe Creative Suite CS6 Adobe; Article Title: The potential influence of genome-wide adaptive divergence on conservation translocation outcome in an isolated greater sage-grouse population. Article Snippet: We then clipped adapters and low-quality ends (k = 23, mink = 11, ktrim = r, qtrim = r, trimq = 30) and removed reads <40 bp (minlen = 40) with Article Title: Large-scale phenotypic and genomic analysis of Listeria monocytogenes reveals diversity in the sensitivity to quaternary ammonium compounds but not to peracetic acid Article Snippet: The raw sequencing data of the 1,671 isolates were processed with the FoodQCpipeline v1.6 ( https://bitbucket.org/genomicepidemiology/foodqcpipeline/src/master/ ), which uses bbduk2 from Article Title: Large-scale phenotypic and genomic analysis of Listeria monocytogenes reveals diversity in the sensitivity to quaternary ammonium compounds but not to peracetic acid. Article Snippet: Month XXXX Volume 0 Issue 0 10.1128/aem.01829-2416 Assembly, species identification, in silico sub-typing, and core-genome phylogeny The raw sequencing data of the 1,671 isolates were processed with the FoodQC pipeline v1.6 (https://bitbucket.org/genomicepidemiology/foodqcpipeline/src/master/), which uses bbduk2 from Article Title: U6 snRNA m6A modification is required for accurate and efficient splicing of C. elegans and human pre-mRNAs Article Snippet: Standard adapter sequences and common contaminants were removed from the paired-end reads using BBduk from the BBtools package version 37.62 ( https://sourceforge.net/projects/bbmap/ ) with the following parameters: -k 21, -ktrim r, -hdist 1, -mink 11, -trimq 15, -qtrim rl, -minlen 35, -tpe, and -tbo. Sequencing:Article Title: Deciphering root-associated microbial communities in asymptomatic oil palm seedlings exposed to Ganoderma boninense : new insight into disease tolerance of oil palms Article Snippet: .. For data processing, sequence adaptors and low-quality reads were removed from paired end reads using BBDuk of the |