In STACKS, I ran process_radtags and get close to 20 million reads. They are paired-end 150bp reads.
/home/srile14/stacks-1.48/process_radtags...
14 results in 0.0021 seconds.
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Really Low Bowtie2 Alignment Numbers From Demultiplex in STACKS
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Can Bowtie 0.12.7 handle Sanger / Illumina 1.9 ?
Hello. I have a user that needs to use Bowtie 0.12.7 (Yeah, old version. Don't ask.) but the quality score format of our FASTQ files is Sanger / Illumina... -
BowTie Output Format
I have to find matching of short reads of a .fq file onto human genome. I am using BowTie for that.
Here is one read of my input file:... -
Bowtie reference genome file
Hello,
I have a bunch of RNA-Seq files (single-end runs) to be aligned to a reference genome. I plan to do that by Bowtie2. However, I... -
BowTie 1 Inaccuracy 30 % ?
From BowTie Paper I found that, it is able to find exact matches and also in exact matches. Now, from bowtie manual, I found how to build index for a...Last edited by Arupsss; 06-23-2012, 08:06 AM. -
BowTie 1 Commands ?
From BowTie Paper I found that, it is able to find exact matches and also in exact matches. Now, from bowtie manual, I found how to build index for a...Last edited by Arupsss; 06-21-2012, 08:57 AM. -
Genomic Sequence Database vs Chromosomal sequence database ?
I am doing some experiment with BowTie 1. Now, I want to give BowTie the whole human genomic database as input. However, I have 22 chromosomal sequence... -
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DNA sequencers 150 bps Output File
I am doing some experiment using BowTie 2. Now, I want, to experiment with it on 150 bps reads. So, I want DNA sequencers 150 bps output file. For example,... -
Bowtie and reads that failed to align: (100.00%)
Hello,
Can someone help me please. I have some new paired-end sequence from illumina and the reads are not aligning. What am I doing wrong?... -
unmapped reads - bowtie
Hi everybody,
I am running bowtie to analyse my paired-end Illumina data sets. I have two files one from wild type and one from a mutation... -
Myrna stops in paired bowtie alignment
Hi all,
I am running myrna_local on a paired read solexa+64 data(FASTQ formatted).
I've passed the preprocess step with... -
Many alignments from unknown genome
We've just had a set of 3 samples sequenced using an Illumina GA with 76bp single-end reads, with one sample per lane. Each lane contains around 15 million...
