Hi folks
I wonder if anyone would like to share experience with Lexogen SENSE for de novo assembly? I am considering using the kit as it...
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Lexogen SENSE for de novo assembly?
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Question: Metatranscriptome binning
Hi Everyone!
We work with a lignocellulose-degrading microbial consortia. Within a time-series experiment of an enriched culture, we perform... -
post de novo assembly reference mapping?
I am curious if there is a program/app that would do post de novo assembly reference mapping--essentially breaking down the full scaffold into chunks... -
Rearrange Scaffolds after De Novo for Multiple Sequence Alignment
Hi, Right now I have 3 chloroplast genomes. I want to do rearrange the scaffold based on reference so I can do Multiple Sequence Alignment. Is there any... -
Get fast and free access to large-memory computing
If you require large shared memory compute resources for de novo assemblies or other memory-intensive tasks, you may want to consider requesting compute... -
No peak in BBNorm kmer-frequency histogram
Hi,
I'm working on de novo assembly of an insect genome. Our paired-end libraries were made from 10 ng of sheared DNA using a Rubicon ThruPLEX... -
De novo Assembly k-mer question
Hello all, I have a general discussion question:
If small kmers are used in an assembly that utilizes a de bruijn graph, we can expect... -
SSPACE library file
Hello all,
I have been trying to use SSPACE for scaffolding contigs in a de novo assembly, but can't seem to get the library file right.... -
Velvet referenced assembly
Hello all,
I see that Velvet has a Columbus module to assemble genomes using a reference as a template. Although it also says this is best... -
SPAdes plasmids output
Hello all. I have done a plasmidSPAdes run on my bacterial reads to look for any plasmids. In the final output directory, I have the contigs.fasta file...Last edited by ronaldrcutler; 07-26-2016, 07:51 PM. -
Newblar (GS de novo assembler) paired end input
Hello all.
I am new to genome assembly and am using Newblar to assemble two paired-end fastq files that are 4.09 GB each. I see that when... -
Webinar: De Novo Transcriptome Assembly, Auto-Annotation and RNA-Seq For Any Organism
Join DNASTAR for a webinar on Wednesday, March 9 at 1:00 PM EST (GMT -5:00), where we will present our new software workflow for de novo transcriptome... -
Computational Karyotyping of non-model species genomes
Greetings.
I have some nice long read data for a diploid animal. There are no references species or even genera in this group and the... -
De novo genome assembly strategy
Assembling a genome de novo. I have:
10X coverage with PAC-BIO reads
100X coverage with Illumina short reads (150 bp paired-end... -
Extracting sex chromosomes from sequenced genomic DNA reads or assembled genome
Hi everyone.
I have two sets of data; male and female (Illumina sequenced, PE reads, ~300 million each, 100bp) of a non-model organism...
