29 results in 0.0030 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,... -
Pfam search using hmmer but only for a specific taxonomy
I am trying to do a de novo assembly using Trinity. Using Transdecoder and blastp/hmmscan search to do annotation (using Uniprot/pfam databases). htt... -
De novo assembly of ATAC-seq
Hi everyone,
I was wondering if someone has tried to make a de novo assembly of ATAC-seq reads? You think is worth it? or would it end... -
Is it possible to evaluate genome size with sequel data?
Now we are doing the denovo assembly of marine organism with whole genome sequcing using sequel system. As we all know, the DNA extraction from marine... -
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... -
What's happening about my kmer spectrum? Heterozygous or repeats?
I am doing a denovo genome sequencing and i get the kmer spectrum using clean reads of two paired end libarary data(see attach files). From the plot,... -
Denovo transcriptome assembly
Hi Forum,
We have some RNA-Seq data generated using Nugen's Ovation RNA-Seq System V2 kit.I plan to do denovo transcript assembly using cufflinks... -
How best to use --bflyHeapSpaceMax and --bflyGCThreads on Trinity
I am currently using trinity v2.6.0. My jobs keep crashing at the butterfly stage of the analysis, with such error messages as:
succeeded(1008),... -
cegma genome_map error
Hi all,
I followed christoph installation log file for cegma 2.4 which is very well explained.
http://korflab.ucdavis.edu/dataset...Last edited by lilicano; 02-11-2015, 03:57 PM. -
MIRA denovo assembly
Hi,
I have a problem with MIRA 4 assembly denovo using reads in fastq format come from ion Torrent technology.
my manifest... -
Identify TFs in New Assembled Organism
A denovo assembly of a new organism that lives in the sea (from the animal kingdom but we do not know its type specifically) have been prepared.
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Finding repetitive elements from BAC sequences and Illumina sequences.
Hello to everybody,
I need to identify repetitive elements of 5 genotypes from the same species (a plant species that is not yet sequenced).... -
Problem extending/scaffolding contigs with MiSeq 250bp reads?
Greetings. I have some denovo assembled contigs (Velvet 1.2.10) made from 250bp MiSeq (Illumina) reads. After I make the contigs, I normally extend... -
finding novel proteins from denovo assembly
hi all,
we are planning to compare two closely related plant species of same genus, but it is non-model plant. Our idea is to compare both... -
Building a Circular de novo Assembler
Geneious developer Matt Kearse has written a blog about how he built the circular de novo assembler for the R7 Update. Hopefully some of you will find...
