Hey there,
I have been using tadpole for error correction (and BBtools in general) and I am extremely happy with its results and performance....
17 results in 0.0034 seconds.
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Run Tadpole (BBtools) only on sub-sets of reads from input files
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pooling reads for error correction
For error-correction of Illumina reads, is it a good idea to pool reads from several samples and do error correction on the pool, rather than individually?... -
trimmomatic error correcting problem
Hi all,
I use trimmomatic to trim and error correct. Commands are as below
trimmomatic PE -threads 16 forward.fastq.gz reverse.fastq.gz... -
Error correction of PACbio using Illumina? When and how? no Ref. Genome
Hi all,
We've sequenced the transcriptom of a species (genome is about 3GB), but NO reference genome is available, using PACbio and Illumina.... -
tophat2/2.1.0 error running from bam2fastx
I am running tophat2.1.0 (bowtie 2.2.6.0) on SE RNAseq data and encountering the following error:
[2016-02-29 09:38:34] Beginning... -
snp calling by Pacbio reads
Hi guys,
Glad to find this place.
Now I'm trying to use 50X pacbio reads for human genome re-sequencing analysis, like... -
paraslonic started a topic Dataset with Ion reads and Illumina/Sanger reads is neededin Ion TorrentDataset with Ion reads and Illumina/Sanger reads is needed
Hi!
I`ve developed a small tool which corrects indel errors in reads. It results in much lower number of genes with artificial stop codon or frameshift... -
Best error correction software and methods for de novo assembly of transcriptomes?
Greetings! It seems like a while (5 years) since this question was asked and I am sure there has been lots of progress on the topic in that time. I have... -
Introducing Tadpole: an assembler, error-corrector, and read-extender
Tadpole, a new BBTool, is an extremely fast kmer-based assembler. How fast is it? Around 250x faster than SPAdes with --careful (which is how we generally...Last edited by Brian Bushnell; 10-14-2015, 05:49 PM. -
LSC-example test error
Hi all, I am trying to use LSC to correct my pacbio reads with illumina reads. However, after installation, I ran into problems running LSC example data.... -
Introducing BBNorm, a read normalization and error-correction tool
I'd like to introduce BBNorm, a member of the BBTools package.
BBNorm is a kmer-based normalization tool for NGS reads, which may also be...Last edited by Brian Bushnell; 01-29-2015, 09:47 AM. -
Miseq de novo assembly : Ambigous base pairs (NNs) in the contigs
Hi,
I am using MiSeq paired-end reads (250X) coverage ..quality trimmed ..for de novo assembly using abyss ..
In the assembly... -
Get the original read IDs from corrected reads by AllPath-LG error correction module
Hello SEQanswers Community,
I am a newbie to develop bioinformatics tools although I have many experiences in computer and electrical engineering....Last edited by abysslover; 07-14-2013, 04:08 AM. -
pacBioToCa output reduced reads
I ran pacBioToCA to correct my pacbio long reads with illumina short reads + pacbio ccs reads. When I started my run, I had:
illumina short... -
Reptile error correction tool: fastq not readable
Dear all!
I've tried to use Reprile error correction tool ( http://aluru-sun.ece.iastate.edu/doku.php?id=reptile ) for my MiSeq reads, but unfortunately...
