三月份所有文章 | Public Library of Bioinformatics

Running newbler: more de novo assembly parameters

There is a long list of options/flags/parameters for a newbler assembly, some of which have been tre...

03月31日 1,287 评论

This post is about how to start up newbler for de novo assembly projects. I will describe setting up...

03月31日 1,996 评论

The files that are the topic of this post are all tables, i.e. tab separated text files. The ‘status...

03月31日 421 评论

In the post on what is new in newbler version 2.6, I introduced the -scaffold option. Briefly, with ...

03月31日 380 评论

Sometimes you might observe very short contigs, some even having high read depth. You might see thes...

03月31日 478 评论

The files most people are after when they do an assembly must be these: the actual contig and scaffo...

03月30日 778 评论

With this post, I’ll start going through the output files newbler generates. Some of these will be d...

03月30日 442 评论

Since version 2.3, newbler has a -cdna option for de novo transcriptome assembly. In this post, I’ll...

03月30日 1,119 1

The single file I’ll discuss today has in fact almost the entire assembly in it, besides the actual ...

03月30日 700 评论

I thought to start by explaining briefly how newbler works. I’ll do this by following the output new...

03月30日 1,105 1