Hello,
Human RNA-seq dataset was generated from Illumina HiSeq 3000 with 2X100 cycles run.
The first step is making alignment...
18 results in 0.0022 seconds.
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suitable aligner for human RNA-seq
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best suitable aligner for RNA-seq mapping
Hello,
Human RNA-seq dataset was generated from Illumina HiSeq 3000 with 2X100 cycles run.
The first step is making alignment... -
Setup sequence aligner in MPICH2 cluster
I am really new to cluster computer but I want to try it because using 1 computer take a bit of time. In my lab, I have several old PC so I think it would... -
bowtie2 expected insert size interval
Hey everyone,
I'm in a bit of a pickle trying to figure out the way the output in bowtie2 is different from the bowtie'1' output. My... -
STAR alignment - splice acceptor site vs mismatch
This is more a question about how STAR works. In figure 1 of the paper (here), the aligner can either look for a splice acceptor site or extend beyond... -
Mafft mismatch value
Hi,
I tried to find both in
http://mafft.cbrc.jp/alignment/softw...al/manual.html
and
http://mafft.cbrc.jp... -
Straight forward Smith waterman aligner?
So I am looking for a straight forward smith waterman program which hasnt been "enhanced" and just accepts fasta files and compares to find... -
Best Aligner for Duplicated Sequences
I'm looking around for some input from fellow SEQers. I'm experimenting with different aligners. I'm looking for an aligner that does a good job of correctly... -
Can Crossbow work with local fasta data?
Hello,
I have managed to set up a single node hadoop cluster. i installed Crossbow, Bowtie and SOAPsnp with the help of Crossbow manual.... -
Using multiple genome aligner and outputing SNP file
Hi everyone,
I'm looking for a multiple genome aligner that outputs a file containing all the positions of the SNPs. I've tried using Mauve,... -
Aligner that reports all alignments?
Hi, I'm looking for an aligner that reports multiple/all hits rather than just a single one. I know mrfast or BWA-short can do this for Illumina data,... -
Tips for writing an own aligner
I am trying to write an own special-purpose aligner for read alignment or realignment. I need some help.
Say that I have found a particular... -
Zoom And SAM format
Hi All
Does anyone know of a tool to convert zoom! (zillions of oligos mapped) output to SAM format.
This page:
... -
Mosaik Aligner problem with SOLiD sequences
Hi all,
I have installed Mosaik 1.0 on two desktops to map SOLiD colorspace reads. On one desktop, the Aligner never quite worked: it would always...
