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• Cip adapters with FASTX Galaxy
  I am just trying my first NGS analysis using Galaxy. FASTQC showed contamination with adapter dim...
• how can I use a custom adapter sequence in trimmomatic while in Galaxy?
  Hi, I want to use a custom adapter sequences in trimmomatic. But when I upload a fasta file, the...
• Illumina Clip Step in Trimmomatic
  In trimmomatic, under Perform Initial Illumina Clip step, which adapter sequence should I specify...
• Trim Adapters And Other
  Hi, all! I have a maybe naive question that might be not so related to Galaxy usage. So I got th...
• How do i remove multiple adapter sequences from my RNAseq reads?
  Hi there, I want to remove the universal adapters as well as the index adapters in each data fil...
• adding illumina adapter sequences to local galaxy installation for use with trimmomatic
  Hi Having fun setting up local galaxy. Does anyone have a guide to adding illumina adapter seq...
• Trim Galore version - Adapter sequence
  Hello, I have been using Galaxy's Trim galore for clipping adapters from Illumina small RNA sequ...
• Cutadapt I don't see my list of adapter
  Hello, I have a problem with Cutadapt, I would like use a list of adapter, I have copied my list...
• Removal of primers using Trimmomatic
  Hello, Trimmomatic has an illuminaClip feature which appears to be able to cut custom sequences ...
• 3' Adapter Trimming Using Fastx-Toolkit Clipper
  Hi all, I am analyzing miRNA sequencing now. My data is 51bp, single -ended and ~5 M reads. I wan...
• How to choose values in trimmomatic steps ?
  which one file to choose the adapter sequences to use and what are the value to choose for Maxim...
• Cutadapt with option of using adapter Fasta file
  Hi, The cutadapt tool available in the galaxy tool shed only allows for the manual input of the ...
• What is the sequence of Illumina Universal Adapters?
  I am currently analyzing RNA-seq data. I would anyways be trimming the adapters. However, it woul...
• Adapter trimming in basespace
  I have used NuGEN RNA-seq kit and adapter sequence. is AATGATACGGCGACCACCGAGATCTACACTCTTTCCCTAC...
• sequencing adapter trim
  I'm trying to trim the adapters from sanger/illumina sequences in Galaxy. The adapter selection m...
• Clip Adapter Sequence
  Good morning, I am very new in using Galaxy. I would like to use Clip to remove the adapter sequ...
• Cutadapt need adaptor sequence input
  I use cutadapt on galaxy to trim my adaptors for my fastq files. Does the program find a default ...
• Removing a single base from 3' end of the reads using "Clip" option
  Hello, I need to remove a single base i.e. C from the 3' end of all of my reads. I tried doing i...
• remove overrepresented (contaminated) sequence
  Hello, Based on FastQC result, I have two overrepresented sequence. One is my TruSeq Adapter s...
• CutAdapt Batch Mode Input for 3' and 5' Adapters
  Hi, I'm currently using the CutAdapt tool on Galaxy to remove adapter sequences from fastq-forma...
• trimmomatic with paired-end
  Dear Biostar, I have paired-end sequencing data I would like to trim using trimmomatic. I have r...
• trimming adapter sequences. is it necessary?
  Hi, I am a beginner to chip-seq analysis using Galaxy. I have received my data and did fastqc qua...
• Trimmomatic Input Values
  Hello- I am using Trimmomatic to improve the quality of my RNA-seq data. I am using the followi...