Tools to generate coverage plots for the sequenced virus reads
Hi Folks,
I have sequenced virus reads (151 bases, paired-end) samples using MiSeq. I would like to generate coverage plots. Do you recommend any tools to generate it and visualize them?
coverage
snp
dnaseq
virus
• 46 views
•
link
updated
by
Brian Bushnell
•
written
by
bioinforesearchquestions
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
How to plot the coverage for each amplicon across the samples?
written by macgenome •Hi everybody, I have sequenced a virus using the amplicon approach (similar to the ARTIC for SARS-CoV-2) using 28 pairs of primers. I would like …
-
What is the appropriate assembler for PacBio long reads
written by bioinforesearchquestionsHi folks, We got long reads sequenced from 10 bacteria using Pac Bio sequencing platform. 5 of them don't have reference bacterial strains and 5 …
-
how to evaluate coverage at a regions of interest and generate specificity, sensitivity and PPV for…
written by bioinforesearchquestionsHi guys, We have exome sequenced samples at a minimum of 15X coverage using capture kits. - We would like to * identify genes that …
-
How to generate FASTA sequence of genes and phylogenetic analysis from NGS sequenced reads?
written by bioinforesearchquestionsHi, One of our collaborators lab recently isolated virus samples from patients. I received the sequenced reads from MiSeq for those virus samples. Then I …
-
Tools to generate coverage plots for the sequenced virus reads
written by bioinforesearchquestionsHi Folks, I have sequenced virus reads (151 bases, paired-end) samples using MiSeq. I would like to generate coverage plots. Do you recommend any tools …
-
What is the acceptable percentage of reads with adapters sequenced in miRNA sequencing?
written by bioinforesearchquestionsHi Folks, I am working on miRNA sequenced reads using Illumina (51bp, single-end reads). A - Sample B - Total reads C - Reads_with_adapter_sequences D …
-
Where to download fasta sequence of ribosomal RNAs for human build 37
written by bioinforesearchquestionsHi I would like to download the following eukaryotic ribosomal RNAs to perform alignment of my sequenced reads against these rRNAs alone. 5S : 121 …
-
Improving the coverage of raw fastq data with Trimmomatic CROP option
written by Ruf_M •I have a set of isolates sequenced with MiSeq (Nextera XT DNA, paired-end reads, 600 cycles). However, the MiSeq samples suffered a major quality drop …
-
Want to trim off last 50 bases from 151 bases read using trimmomatic?
written by bioinforesearchquestionsHi All, I have raw paired-end fastqc files of read length (151 bases). I would like to trim off last 50 bases and would like …
-
How to extract fasta sequence of a gene from BAM files generated using Miseq sequencing
written by bioinforesearchquestionsI have 30 viral samples sequenced using MiSeq. I received forward and reverse fastq files and also bam files which are aligned with the reference …
Hello bioinforesearchquestions!
Duplicate posting: Tools to generate coverage plots for the sequenced virus reads
If you disagree please tell us why in a reply below, we'll be happy to talk about it.
Cheers!