My Project
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Creates two types of summary reports in html format
fastq
files. Needs the binary output of Qreport
, for a list of files. It will analyze all files with extension *.bin
inside the folder specified in the input and will expect them to have the appropriate format (output from Qreport
).trimFilter
) of a set of fastq
files. It will analyze all files with extension *bin
inside the folder specified in the input and will expect them to have the appropriate format, (output from trimFilter
).trimFilterDS
) of a set of double stranded fastq
files. It will analyze all files with extension *bin
inside the folder specified in the input and will expect them to have the appropriate format, (output from trimFilterDS
).Usage C
executable (in folder bin
):
# reads , # tiles, % lowQ reads, % reads with N’s
for all samples.Nreads
, Naccepted
, disc Ad
, cont
, disc lowQ
, disc N’s
, trim Ad
,trim N’s
,trim lowQ
for all samples.Nreads
, Naccepted
, disc Ad
, cont
, disc lowQ
, disc N’s
, trim Ad
,trim1 N’s
,trim1 lowQ
, trim2 N’s
, trim2 lowQ
for all samples.-t Q
An example is given in the folder examples/QReport_Sreport
. To run an example, type,
and compare it with the provided run example, as specified in the README file under ./examples/QReport_Sreport
NOTE: it has to be run AFTER Qreport
example
-t F
In folder .examples/trimFilter_Sreport/bin_files
, 30 fake ./trimFilter
binary output files were generated (with the R
script create_fake_bins.R
). An html output was created out of them (.examples/trimFilter_Sreport/bin_files/filter_Sreport_example.html
). It can be reproduced if you run:
-t D
In folder .examples/trimFilterDS_Sreport/bin_files
, 30 fake ./trimFilterDS
binary output files were generated (with the R
script create_fake_bins.R
). An html output was created out of them (.examples/trimFilterDS_Sreport/bin_files/DS_Sreport_example.html
). It can be reproduced if you run:
Paula Pérez Rubio
GPL v3 (see LICENSE.txt)