Hi everybody, I would like to try to modify the TMAP aligner of my S5 and PGM latform to remove the soft clipped bases.
My idea is to change this...
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Soft clipping removal on the torrent suite
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Soft clipping removal on the torrent suite
Hi everybody, I would like to try to modify the TMAP aligner of my S5 and PGM latform to remove the soft clipped bases.
My idea is to change this... -
sam input of tmap
one of the input format that tmap accepts is sam. I have generated sam file from basecaller bam with samtools view -h which contains lines starting with... -
Analysis of mate-pairs data (Ion Torrent)
Hi everybody,
I wonder if someone has experience with analysing data from mate-pair librairies and could share his/her experience with... -
How to get unique mapped with TAMP?
Hi ,all.
I'm using TMAP to align Ion Torrent reads. I wonder how I can get unique mapped reads from the TMAP output SAM files.
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tmap - set up read length to map?
Hello All,
I would really appreciate if somebody could help me. I use this command to run tmap on the Ion Torrent server:
...Last edited by kadri; 11-12-2013, 02:48 AM. -
Too many DEG with edgeR output?
Hi there,
I'm dealing with bacterial RNA-seq analysis. My experiment is very simple. Two samples to compare and no replicates. Reads were... -
TMAP issue
I've found the answer to my own question: need to use "tmap index" to index the genome file first.Last edited by zjiexin; 07-03-2013, 09:16 AM. -
TMAP versus other aligners
Hi there,
I am working on some new data from Ion Proton and PGM as well. I was wondering if anyone had any experience comparing the alignment metrics... -
TMAP: exception src/io/tmap_file.c
TMAP can't seem to open any reference files that I pass it. I've tried several different reference files but I always get the following exception
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