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Saturday, July 06, 2013. Fastq format converter in Fastx. Fastx is a useful tool for quality clipping, getting quality statistics etc. Just running with -i and -o parameters, it will complain if you have file in sanger fastq format. there is an undocumented parameter that takes the quality offset. For instance if you want to run a sanger fastq file, then do the following:. Fastx quality stats -i tmp -Q 33 -o tmp.out. But if the file is in Solexa format, then you dont have to specify the -Q option. Thursd...

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genomics | genomics-array.blogspot.com Reviews

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Saturday, July 06, 2013. Fastq format converter in Fastx. Fastx is a useful tool for quality clipping, getting quality statistics etc. Just running with -i and -o parameters, it will complain if you have file in sanger fastq format. there is an undocumented parameter that takes the quality offset. For instance if you want to run a sanger fastq file, then do the following:. Fastx quality stats -i tmp -Q 33 -o tmp.out. But if the file is in Solexa format, then you dont have to specify the -Q option. Thursd...

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genomics | genomics-array.blogspot.com Reviews

https://genomics-array.blogspot.com

Saturday, July 06, 2013. Fastq format converter in Fastx. Fastx is a useful tool for quality clipping, getting quality statistics etc. Just running with -i and -o parameters, it will complain if you have file in sanger fastq format. there is an undocumented parameter that takes the quality offset. For instance if you want to run a sanger fastq file, then do the following:. Fastx quality stats -i tmp -Q 33 -o tmp.out. But if the file is in Solexa format, then you dont have to specify the -Q option. Thursd...

INTERNAL PAGES

genomics-array.blogspot.com

1

genomics: Installing CEGMA...

http://genomics-array.blogspot.com/2013/05/installing-cegma.html

Sunday, May 19, 2013. Installing CEGMA can be a bit of a challenge for most of the users including me! I had installed it earlier, but this time it really gave me a very hard time in RH 6.2. Apart from installing a set of pre-requisitites, installation of genewise is bit of a challenge - especially so because now its status is archival. The INSTALL instruction that comes with the package is not very useful. Genewise has several pre-requisites:. Glib has several pre-requisites such as. All these installat...

2

genomics: Installing Samtools and BEDTools

http://genomics-array.blogspot.com/2013/06/installing-samtools-and-bedtools.html

Sunday, June 23, 2013. Installing Samtools and BEDTools. Recently I was stuck with easy installations samtools-0.1.19 and bedtools-2.17.0 for more than 3 days. Earlier versions compiled fine in my SUSE linux machine but the same sources give trouble in Red Hat Linux. Look for the line in Makefile '. And add the following:. Export LIBS = YOUR PATH/libz.so. Do a make clean and do make. It should compile fine. With Samtools My problem lasted for a very long time. It always exited with error. N50 is most oft...

3

genomics: July 2013

http://genomics-array.blogspot.com/2013_07_01_archive.html

Saturday, July 06, 2013. Fastq format converter in Fastx. Fastx is a useful tool for quality clipping, getting quality statistics etc. Just running with -i and -o parameters, it will complain if you have file in sanger fastq format. there is an undocumented parameter that takes the quality offset. For instance if you want to run a sanger fastq file, then do the following:. Fastx quality stats -i tmp -Q 33 -o tmp.out. But if the file is in Solexa format, then you dont have to specify the -Q option. Thursd...

4

genomics: Calling a perl subroutine from PHP scripts

http://genomics-array.blogspot.com/2011/12/calling-perl-subroutine-from-php.html

Wednesday, December 28, 2011. Calling a perl subroutine from PHP scripts. I spent a good part of my Christmas vacation in figuring out how to call a perl subroutine from a PHP script. There are 3 levels this task can be achieved:. 1 We will see how to pass absolute values to perl subroutines. 2 Pass variables to perl subroutines and. 3 Collect return values from the perl subroutine. Following are some points to be remembered:. Use include "package name" inside the PHP script. Package Test # #. Level3: Co...

5

genomics: Not mine - I found this csfasta to fastq conversion script that worked best...

http://genomics-array.blogspot.com/2013/07/not-mine-i-found-this-csfasta-to-fastq.html

Thursday, July 04, 2013. Not mine - I found this csfasta to fastq conversion script that worked best. Use Getopt: Long;. My $usage = qq(. This script is used for converting SOLiD/ABi FASTQ to Standard(Sanger) FASTQ. Usage : perl $0 [Option]. Option: -seq seq file. Example: perl $0 -fastq solid.fastq -o std.fastq. Author : BENM BinxiaoFeng @gmail.com. My ($Seq,$Qual,$Fastq,$Output,$Header,$Help);. Die($usage) if ( (! Defined $Qual) & (! Defined $Output) ($Help) ;. Solexa- Sanger quality conversion table.

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Brand new DAP gives Mattick a run for his money. By T Ryan Gregory, on January 11th, 2017. Check out this brand new dog’s ass plot. DAP) Note that the only labels on the x-axis are the genomes of the different species — yet the points are connected on the line as though there was an actual transition between these modern species. Wow Just… wow. How does this sort of thing get past peer review? How do figures like these get drawn in the first place? Human males are bigger than females because…. 8211; Mate...

genomics-array.blogspot.com

genomics

Saturday, July 06, 2013. Fastq format converter in Fastx. Fastx is a useful tool for quality clipping, getting quality statistics etc. Just running with -i and -o parameters, it will complain if you have file in sanger fastq format. there is an undocumented parameter that takes the quality offset. For instance if you want to run a sanger fastq file, then do the following:. Fastx quality stats -i tmp -Q 33 -o tmp.out. But if the file is in Solexa format, then you dont have to specify the -Q option. Thursd...

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