Writing a script for quast
Can someone please help me writing a script for quast and to have a table with summary of all data regarding my project in bacterial genome assembly.
Thanks
assembly
• 971 views
•
link
updated
by
Ram
•
written
by
babdalhamid •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Phenoptr Reports: My data is not being consolidated. Any idea why and how do I overcome it?
written by Shweta Dilip •Hello, My name is Shweta Johari and I have multiple IHC projects and want to analyze them using phnoptr R. I have downloaded the phenoptr …
-
From a list of RefSeq protein IDs to assembly accessions
written by GZM •Hi All, I am pretty new at script writing and terminal usage. I was wondering if there is an easy way to start from a …
-
set the minimum contig length in spades
written by babdalhamid •Dear Sir/Madam: I have the following script for spades, quast, and prokka. It is working perfect. However, there are several contigs with less than 200 …
-
Writing a script for quast
written by babdalhamid •I am running spades for denovo assembly for several strains. I want to run quast for quality check on denovo assembly using the following command …
-
What is required for genome annotation?
written by jjeangoh •Hi! I'm biotechnology undergrad (wet lab) currently doing my master in bioinformatics. Now my project is regarding fungi genome assembly and annotation. I had done …
-
De-novo assembly using SPADES
written by ram.mainali •Before, I used SOAPdenovo2 to assemble my target reads. In order to use multiple k-mer and have better assembly result, I used SPADES for de-novo …
-
How to get promoter coordinates of hg19 from UCSC genome browser ?
written by jackHi all, I need to get Promoter coordinates of all genes in human genome from hg19 assembly. Is it possible to get it from UCSC …
-
What are the best approaches to evaluate a genome assembly using the 'intrinsic' data?
written by fhsantannaI have assembled four bacterial genomes derived from MiSeq pair-ended sequencing data using the following steps: 1. Assembly using CLC Workbench; 2. Assembly using SPADES; …
-
Implementing McDonald-Kreitman test
written by GR<p>Dear All,</p> <p>I am writing a python script to implement McDonald-Kreitman test. I am not sure how to deal with the case of multiple mutations …
-
How To Improve Whole Genome Assembly Quality
written by HG<p>Hi everyone, I am new in sequence assembly. I have stared a project of 50 ecoli whole genome sequencing illumina data set. I did all …
Please show what your input data, desired output and any code you have already tried, looks.