More posts like this
-
Removing overrepresented sequences in paired end RNA-seq
written by LayneSadlerAfter trimming and QC'ing RNAseq for adapters with `trim_galore` (`cutadapt`+`fastqc`), should I remove over-represented sequences that FastQC identifies as **possible adapter/primer source**? [Is there a …
-
Removing overrepresented primer sequences
written by Ml6237 •Hello all, I have paired end RNA seq data. Sequenced read files provided were "cleaned" reads (adapters and low quality reads removed). In one pair …
-
Finding over-represented sequences in fastq file
written by c_uI have a fastq file from human RNA-seq data, which did not have a good mapping rate (9%) when I mapped it to the genome. …
-
miRNA identification from RNA seq data
written by sa1987 •HI i am working on RNA seq data and not small RNA data.. i want to know how to finf the miRNA from RNA seq …
-
Possible tiny amount of adaptor sequence left
written by GLFR •Hello, I used trimmomatic to remove adaptor sequences and sequences less than 36bp from my RNA-seq reads. At first I used TruSeq 3 adaptors that …
-
fastqc overrepresented sequences
written by IPHi everyone! I am working with NGS data, and I have reads ranging from 30 to 250 bp. If I run fastqc on my fastq …
-
ERCC spike in
written by GLFR •Hello! I apologise if I am asking a basic question but I was wondering if someone here could clue me in about the role of …
-
Per sequence GC content fail linked to rRNA ?
written by cjmb3 •Hi everyone, I'm new to RNA-seq and I'm struggling with the QC of my data. I performed Illumina paired-end stranded RNA-seq on human cells (ran …
-
How to remove adapters using Trimmomatic software?
written by sukesh1411 •Hi, I am the beginner to perform RNA Seq analysis. I installed FASTQC and submitted the RNA sequence to check the quality of the sequence. …
-
FastQC of small rna-seq
written by marcon •Hello, Recently I received some small rna-seq data to analyze. Since I have never worked with small rna-seq data I'm a bit lost with fastQC …
Hello shafnaasmy.v.s!
Please use the search function with the query 'adapter trimming' both here and on google. This topic has been discussed extensively before. As a starting point, use this thread. Common tools are BBduk from BBmap suite, trimmomatic, cutadapt, skewer and many others.
For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.
If you disagree please tell us why in a reply below, we'll be happy to talk about it.
Cheers!