i get text files with
Action & Adventure|2012: Supernova NR|2009-11-01 00:01:00|2010-05-01 23:59:00|Active|3
Action & Adventure|50 Dead Men Walking|2010-01-05 00:01:00|2010-06-30 23:59:00|Active|4
Action & Adventure|Afterwards|2009-11-26 00:01:00|2010-03-26 23:59:00|Deactivated|6
Based... (3 Replies)
Hi,
I'm trying to assign a score to each row which will allow me to identify which rows differ. In the example file below, I've used "," to indicate column separators (my actual file has tab separators). In this example, I'd like to identify that row 1 and row 5 are the same, and row 2 and row... (4 Replies)
Hey everyone.
I am trying to figure out a way to create a file that will be renamed based off of one of multiple files. For example, if I have 3 files (cat.ctl, dog.ctl, and bird.ctl) that gets placed on to an ftp site I want to create a single file called new.cat.ctl, new.dog.ctl, etc for each... (3 Replies)
Hi All,
I have a file which looks like this:
234422 1 .00222
323232 1 3232
32323 1 0.00222
1234 2 1211
2332 2 0.9
233 3 0.883
123 3 45
As you can see, the second column of the file is already sorted which I did using sort command.
Now, I want to create files based on the second... (1 Reply)
I have to create a bunch of functional (non-user) accounts that are owned by 1 person. And I create several of these functional accounts each day so there are several owners. Is there a way to make a password based off an algorithm that uses the owners identification number, so all accounts I... (2 Replies)
I have two files with thousands of sequences of different lengths. infile1 contains the actual sequences and infile2 the scores for each A, T, G and C in infile1. Something like this:
infile1:
>HZVJKYI01ECH5R
TTGATGTGCCAGCTGCCGTTGGTGTGCCAA
>HZVJKYI01AQWJ8
GGATATGATGATGAACTGGTTTGGCACACC... (4 Replies)
Hello masters,
I am filtering data based on completeness. A (Name , Group) combination in File2 is only complete when it has data for all subgroups specified in File1.
All incomplete (Name , Group) combinations do not appear in the output.
So for example , Name1 Group 1 in File2 is... (6 Replies)
I have looked through several threads regarding merging files with awk and attempted using join however have been unsuccessful likely as I do not fully understand awk.
What I am attempting is to take a csv file which could be between 1 and 15,000 lines with 5 colums and another csv file that will... (4 Replies)
Discussion started by: cdubu2
4 Replies
LEARN ABOUT DEBIAN
fastx_quality_stats
FASTX_QUALITY_STATS(1) User Commands FASTX_QUALITY_STATS(1)NAME
fastx_quality_stats - FASTX Statistics
DESCRIPTION
usage: fastx_quality_stats [-h] [-N] [-i INFILE] [-o OUTFILE] Part of FASTX Toolkit 0.0.13.2 by A. Gordon (gordon@cshl.edu)
[-h] = This helpful help screen. [-i INFILE] = FASTQ input file. default is STDIN. [-o OUTFILE] = TEXT output file. default is
STDOUT. [-N] = New output format (with more information per nucleotide/cycle).
The *OLD* output TEXT file will have the following fields (one row per column):
column = column number (1 to 36 for a 36-cycles read solexa file)
count = number of bases found in this column.
min = Lowest quality score value found in this column.
max = Highest quality score value found in this column.
sum = Sum of quality score values for this column.
mean = Mean quality score value for this column.
Q1 = 1st quartile quality score.
med = Median quality score.
Q3 = 3rd quartile quality score.
IQR = Inter-Quartile range (Q3-Q1).
lW = 'Left-Whisker' value (for boxplotting).
rW = 'Right-Whisker' value (for boxplotting).
A_Count = Count of 'A' nucleotides found in this column. C_Count = Count of 'C' nucleotides found in this column. G_Count = Count
of 'G' nucleotides found in this column. T_Count = Count of 'T' nucleotides found in this column. N_Count = Count of 'N' nucleo-
tides found in this column. max-count = max. number of bases (in all cycles)
The *NEW* output format:
cycle (previously called 'column') = cycle number max-count For each nucleotide in the cycle (ALL/A/C/G/T/N):
count = number of bases found in this column.
min = Lowest quality score value found in this column.
max = Highest quality score value found in this column.
sum = Sum of quality score values for this column.
mean = Mean quality score value for this column.
Q1 = 1st quartile quality score.
med = Median quality score.
Q3 = 3rd quartile quality score.
IQR = Inter-Quartile range (Q3-Q1).
lW = 'Left-Whisker' value (for boxplotting).
rW = 'Right-Whisker' value (for boxplotting).
SEE ALSO
The quality of this automatically generated manpage might be insufficient. It is suggested to visit
http://hannonlab.cshl.edu/fastx_toolkit/commandline.html
to get a better layout as well as an overview about connected FASTX tools.
fastx_quality_stats 0.0.13.2 May 2012 FASTX_QUALITY_STATS(1)