28 results in 0.0031 seconds.
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Resources to learn genome assembly workflow for small genomes (like viruses)
I have sequencing data of a few samples of a `DNA genome virus`. I'd like to learn `de novo assembly` of the `short reads`, making scaffolds from it,... -
Velvet Columbus (No roadmap)
Hi, I have been running velveth and velvetg for mapping on a reference file (Columbus extension) but I am getting the following error:
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Scaffolding with reads from other individuals
I'm currently woking on the assembly of a diploid eukaryotic genome using a combination of PacBio Sequel subreads and Illumina NextSeq paired-end reads...Last edited by adamrork; 01-03-2020, 09:28 PM. -
OSLay command line
Hi,everyone.
I am trying to use OSLay , a scaffolding tool.
I successfully install it and run a example by gui that oslay... -
long-range technologies for genome scaffolding
Hi all,
I am working on a mammalian genome project. We have an assembly from PacBio reads with N50 = 6.2 Mb. We would like to generate... -
Scaffolding assembly contig with various Mate pair Library Inquiry
I have a sets of Illumina pair-end data sets and used it as input file for de-novo genome assembler program.
I have generate corresponding assembly... -
Assembly using Illumina + Nanopore 1D reads?
Hi,
I am trying to assemble a eukaryotic genome of about 300MB. I have Illumina data, and I am thinking of trying out the MinION Basic... -
Fungal genome de novo assembly and scaffolding
We have data of yeast (Yarrowia)sequenced using Illumina paired-end. Each read R1 and R2 has ~41 million reads. Read length is 150 and insert size is... -
multiple occuring element cause problem with scaffolding
Hello,
I have problem with scaffolding. I tried to combine Spades and SSpace but after several failures a gave it up. I realized that the... -
Please help with assembly 2x250 bp with 350 insert
Hi folks,
I have got data generated from 2x250 bp with 350 bp insert for fungal genome assembly. I got very good results from SPAdes,... -
How to assemble long reads to scaffolds?
I would like to use some long reads from new nanopore data to lengthen and bridge scaffolds in an existing genome release. Does anyone have a recommendation... -
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.... -
Soapdenovo trans
A) After assembling scaffolds from the trimmed and quality filter reads, I am getting the following ratio Average_number_of_contigs_per_scaffold :-1.0... -
Scaffolding tools for metagenomics ???
Hello,
I´m currently working on paired end data (2*150) to build a metagenomics assembly.
So far i´m using the combination of...Last edited by danova; 02-09-2016, 05:00 AM. -
Problem with SSPACE, multi-threading and memory restrictions
Hi,
I am attempting to use SSPACE version 3 to re-scaffold some mRNA contigs using paired-end RNA-Seq data. While SSPACe was designed for rescaffolding...
