Hi All!
I am trying to use MOSAIK to run an alignment of paired end reads sequenced with Illumina HiSeq. I notice that there are two ways...
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MosaikAligner:Segmentation Fault
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MosaikJump stalls and does not complete
I am using Mosaik to align bacterial reads against a set of bacterial references sequences. I am having problems with hashing the references sequences... -
Aligning to a an ambiguous (IUPAC) reference in Mosaik
Hi all,
We are currently trying to design a pipeline for viral sequencing with Illumina. For the alignment, we were considering using... -
Ion Torrent PGM data with Mosaik-aligner
Does anyone have any experience of using the Mosaik-aligner to look at Ion Torrent (PGM) data? Any advice on parameters to use? Is it even possible to-use... -
mosaik-aligner installation problem on redhat 6
Hi,
I have downloaded the Mosaik-1.1.0021-source.tar.bz2 on our RedHat6 64 bit system. When running 'make' in the src directory, errors... -
Degenerate nucleotide mappers
Hi all,
I haven't exhaustively searched the literature, but to the best of my knowledge there aren't mapping tools that support degenerate... -
Mosaik - Read Names Trimmed
Hello All,
I'm aligning SOLiD paired reads. The forward (F3) reads are 50 long, while the reverse (F5-P2) reads are 35 long. Can Mosaik... -
GigaBuild/GigaBayes problem
I think my runs of gigabuild and gigabayes are not working. I've been looking at the log files and it seems like I'm not locating any of my reads in... -
MosaikJump not working properly
Hello all,
I have been trying to create a mosaik jump database from a reference fasta file (hg18, NCBI build 36). I'm using the following... -
About Mosaik Assembler Consensus String
Hello everybody,
I just want to know how I can get a consensus string from the output of mosaik .ace file.
If that's impossible,... -
samtools problems with reference in pileup file
Hello,
I am using samtools to generate a pileup file from a Mosaik genome assembly. My problem is that the pileup file contains all "N's"... -
Problems visualizing Mosaik alignment with Gambit
I have been working with short reads in Mosaik. I have developed an aligniment using the program and used the mosaikAssembler program to creat a BAM... -
Merging alignments in mosaik - problems
Hi! I'm having trouble merging alignments in colour space (SOLiD) and base space (454) in Mosaik (version 1.0.1388). This is what I have done:
...Last edited by 454andSolid; 05-17-2010, 12:04 AM. -
Aligners for Illumina's mate-pairs
Hello everybody,
I just started working with mate-pair data from Illumina and I am a bit lost regarding which aligners can actually work... -
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...
