Question: How to plot length distribution of contigs in the assembly?
2
gravatar for seta
3.2 years ago by
seta1.1k
Sweden
seta1.1k wrote:

Dear all,

Could anybody please let me know if there is a convenient way to plot distribution of  contigs numbers vs. contig length?

Thanks

ADD COMMENTlink modified 8 weeks ago by Vijay Lakhujani3.4k • written 3.2 years ago by seta1.1k
1
gravatar for thackl
3.2 years ago by
thackl2.6k
MIT
thackl2.6k wrote:

Quast produces such plots and other useful assembly statistics as well. See also Quast Is A Convenient Tool For Assembly Evaluation.

ADD COMMENTlink modified 3.2 years ago • written 3.2 years ago by thackl2.6k
0
gravatar for Dattatray Mongad
8 weeks ago by
National Centre for Cell Science, Pune
Dattatray Mongad240 wrote:

use this Python script. Easy to use: python contigPlot.py fastaDir.

Where fastaDir is directory name containing genome files (extension .fasta)

ADD COMMENTlink written 8 weeks ago by Dattatray Mongad240
0
gravatar for Vijay Lakhujani
8 weeks ago by
Vijay Lakhujani3.4k
India
Vijay Lakhujani3.4k wrote:

Check out a shell wrapper in the link below which is based on seqkit that I wrote couple of weeks ago

C: SeqKit: a cross-platform and ultrafast toolkit for FASTA/Q file manipulation in

ADD COMMENTlink modified 8 weeks ago • written 8 weeks ago by Vijay Lakhujani3.4k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1735 users visited in the last hour