Thank you for your prompt reply RudiC and MadeInGermany. I will try your code today and post the results.
---------- Post updated at 03:10 PM ---------- Previous update was at 10:30 AM ----------
It solved the problem. Thank you for your clear and effective code and helping me.
---------- Post updated at 09:06 PM ---------- Previous update was at 03:10 PM ----------
sorry MadeInGermany, but I got an error running the code on real data. The code performs well in sample data (f1, f2, f3). but when I run it on multiple files I get this error:
I renamed the file to '100' with no success. I also renamed to 'hundred' but the error was repeated for the next file (f101). Unfortunately googling wasn't helpful.
Thank you for your time and consideration.
Hi All,
I have a file which is having 3 columns as (string string integer)
a b 1
x y 2
p k 5
y y 4
.....
.....
Question:
I want get the unique value of column 2 in a sorted way(on column 2) and the sum of the 3rd column of the corresponding rows. e.g the above file should return the... (6 Replies)
Hi, I need to create weekly files from daily records stored in individual monthly filenames from 1999-2010. my sample file structure is like the ones below:
daily record stored per month:
199901.xyz, 199902.xyz, 199903.xyz, 199904.xyz ...199912.xyz
records inside 199901.xyz (original data... (4 Replies)
hello!
i need a little help from you :) ... i need to split a file into separate files depending on two conditions using scripting. The file has no delimiters. The conditions are col 17 = "P" and col 81 = "*", this will go to one output file; col 17 = "R" and col 81 = " ". Here is an example.
... (3 Replies)
Hi,
I have a table to be imported for R as matrix or data.frame but I first need to edit it because I've got several lines with the same identifier (1st column), so I want to sum the each column (2nd -nth) of each identifier (1st column)
The input is for example, after sorted:
K00001 1 1 4 3... (8 Replies)
i have multiple files with Batch Header, Record detail & Batch trailer data in the files like :
BH 20150225950050N8262
RD 20140918000000 99999999 unk Deferred Settlement -13950
BT01 -13950
*Above sample data donot have the spaces coorectly defined. I do have multiple batch trailer... (1 Reply)
Hi All,
I have a requirement where I need to find sum of values from column D through O present in a CSV file and check whether the sum of each Individual column matches with the value present for that corresponding column present in the trailer record.
For example, let's assume for column D... (9 Replies)
Hi Experts,
Please bear with me, i need help
I am learning AWk and stuck up in one issue.
First point : I want to sum up column value for column 7, 9, 11,13 and column15 if rows in column 5 are duplicates.No action to be taken for rows where value in column 5 is unique.
Second point : For... (12 Replies)
I have a file abc.csv, from which I need column 24(PurchaseOrder_TotalCost) to get the sum_of_amounts with date and row count into another file say output.csv
abc.csv-
UTF-8,,,,,,,,,,,,,,,,,,,,,,,,,
... (6 Replies)
I have two files, file1.table is the count table, and the other is the range condition file2.range.
file1.table
chr start end count
N1 0 48 1
N1 48 181 2
N1 181 193 0
N1 193 326 2
N1 326 457 0
N1 457 471 1
N1 471 590 2
N1 590 604 1
N1 604 752 1
N1 752 875 1
file2.range... (12 Replies)
Discussion started by: yifangt
12 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)