Hello,
I'm using the Galaxy Main --I was trying to groom data that I had uploaded at
about 11 AM EST and Galaxy informed me that I had met my quota. Indeed it said
that my quota was 98% full, but my history (my only one) said that I had about
13 Gb-- I deleted everything in my history in
Hello Michael,
Data will count towards the disk quota when not permanently deleted.
Also, once permanently deleted, it will take a bit of time (less than an
hour to several hours) for the disk counts in the UI to update. Perhaps
this has already been resolved, but if not, hopefully the rest
Hello Vinny,
The tool Text Manipulation - Select random lines from a file may be
of interest to you. This will not generate random intervals, but it can
select random lines from an interval file or any other file.
The ENCODE tool as build specifically on the target genomes using
external
Hello Tao,
The tools in the group NGS: Picard (beta) - QC/Metrics for sam/bam
can generate statistics, in particular the tool SAM/BAM Alignment
Summary Metrics.
Another choice is NGS: SAM Tools - flagstat.
If more statistics are needed, then starting with the original FASTQ and
the mapping
All,
I'm wondering why do we need to convert Illumina FASTQ into sanger using FastQ
Groomer before mapping with BWA in galaxy. The lastest version of BWA itself
added -I option to use Illumina data directly. What's your opinion on this?
Secondly, I found that Map with BWA for Illumina uses -I
All,
I'm using a locally installed galaxy with GATK 1.3 beta (recently updated). I
would be interested in variant calling using GATK on both Illumina and SOLiD
data. My questions are:
1) What should be the format that Genomic Interval option can accept in beta
version. It produced an error
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