Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
Collapse
 
  • Page of 1
  • Filter
  • Time
  • Show
Clear All
new posts
Previous template Next
  • #1

    Filtering Specific OTUs in Phyloseq to BLAST sequences

    I am currently working with the Phyloseq package in R to analyze 16s sequences. I sequenced the samples with Illumina's MiSeq platform.

    I want to see if I have pathogens in my samples and want to BLAST all the sequences from the Bacteroidetes OTUs but am having trouble figuring out how to determine which OTUs were bacteroidetes. Does anyone know the R commands for phyloseq that would allow me to do this so that I can go back to my QIIME outputs and get the sequences from those OTUs?
    Tags: blast, phyloseq, qiime
Previous template Next

Latest Articles

Collapse
  • seqadmin
    Recent Advances in Sequencing Analysis Tools
    by seqadmin


    The sequencing world is rapidly changing due to declining costs, enhanced accuracies, and the advent of newer, cutting-edge instruments. Equally important to these developments are improvements in sequencing analysis, a process that converts vast amounts of raw data into a comprehensible and meaningful form. This complex task requires expertise and the right analysis tools. In this article, we highlight the progress and innovation in sequencing analysis by reviewing several of the...
    05-06-2024, 07:48 AM
  • seqadmin
    Essential Discoveries and Tools in Epitranscriptomics
    by seqadmin




    The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...
    04-22-2024, 07:01 AM
View All

ad_right_rmr

Collapse

News

Collapse
Topics Statistics Last Post
Advanced Epigenome Editing Platform Explores Gene Regulation Mechanisms by seqadmin
Started by seqadmin, Yesterday, 02:46 PM
0 responses
12 views
0 likes
 Last Post seqadmin
by seqadmin
Yesterday, 02:46 PM  
Telomere Maintenance by PARP1: A New Perspective in Cancer Research by seqadmin
Started by seqadmin, 05-07-2024, 06:57 AM
0 responses
13 views
0 likes
 Last Post seqadmin
by seqadmin
05-07-2024, 06:57 AM  
Enhanced Neoantigen Detection: Introducing NeoHunter by seqadmin
Started by seqadmin, 05-06-2024, 07:17 AM
0 responses
17 views
0 likes
 Last Post seqadmin
by seqadmin
05-06-2024, 07:17 AM  
A Close Examination at Probiotic-Related Bacteremia by seqadmin
Started by seqadmin, 05-02-2024, 08:06 AM
0 responses
23 views
0 likes
 Last Post seqadmin
by seqadmin
05-02-2024, 08:06 AM  
View All
Working...
X