Hi
I have two files in unix. I need to compare two files and print the differed lines in other file
Eg
file1
1111
2222
3333
file2
1111
2222
3333
4444
5555
newfile
4444
5555
Thanks In advance (3 Replies)
Hi Experts,
The question may look very silly by seeing the title, but please have a look at it clearly.
I have a text file where the first 5 columns in each row were supposed to be attributes of a sample(like sample name, number, status etc) and the next 25 columns are parameters on which... (3 Replies)
hi! i researched about comparing two columns here and got an answer. but after examining my two files, i found out that the first columns of the two files are not unique with each other. all i want to compare is the 2nd and 3rd column.
FILE 1:
ABS 456 315
EBS 923 163
JYQ3 654 237
FILE 2:... (1 Reply)
Hello. I have two files. FILE1 was extracted from FILE2 and modified thanks to help from this post. Now I need to replace the extracted, modified lines into the original file (FILE2) to produce the FILE3.
FILE1
1466 55.27433 14.72050 -2.52E+03 3.00E-01 1.05E+04 2.57E+04
1467 55.27433... (1 Reply)
Hi,
I have multiple files that each contain one column of strings:
File1:
123abc
456def
789ghi
File2:
123abc
456def
891jkl
File3:
234mno
123abc
456def
In total I have 25 of these type of file. (5 Replies)
Hi,
I want to compare two columns from file1 with another two column of file2 and print matched and unmatched column like this
File1
1 rs1 abc
3 rs4 xyz
1 rs3 stu
File2
1 kkk rs1 AA 10
1 aaa rs2 DD 20
1 ccc ... (2 Replies)
Hello Unix gurus,
I have a file with this format (example values):
label1 1 0
label2 1 0
label3 0.4 0.6
label4 0.5 0.5
label5 0.1 0.9
label6 0.9 0.1
in which:
column 1 is a row label
column 2 and 3 are values
I would like to do a simple operation on this table and get the... (8 Replies)
Discussion started by: ksennin
8 Replies
LEARN ABOUT DEBIAN
vcf-compare
VCF-COMPARE(1) User Commands VCF-COMPARE(1)NAME
vcf-compare - compare bgzipped and tabix indexed VCF files
SYNOPSIS
compare-vcf [OPTIONS] file1.vcf file2.vcf ...
DESCRIPTION
About: Compare bgzipped and tabix indexed VCF files. (E.g. bgzip file.vcf; tabix -p vcf file.vcf.gz)
OPTIONS -c, --chromosomes <list|file>
Same as -r, left for backward compatibility. Please do not use as it will be dropped in the future.
-d, --debug
Debugging information. Giving the option multiple times increases verbosity
-H, --cmp-haplotypes
Compare haplotypes, not only positions
-m, --name-mapping <list|file>
Use with -H when comparing files with differing column names. The argument to this options is a comma-separated list or one mapping
per line in a file. The names are colon separated and must appear in the same order as the files on the command line.
-R, --refseq <file>
Compare the actual sequence, not just positions. Use with -w to compare indels.
-r, --regions <list|file>
Process the given regions (comma-separated list or one region per line in a file).
-s, --samples <list>
Process only the listed samples. Excluding unwanted samples may increase performance considerably.
-w, --win <int>
In repetitive sequences, the same indel can be called at different positions. Consider records this far apart as matching (be it a
SNP or an indel).
-h, -?, --help
This help message.
vcf-compare 0.1.5 July 2011 VCF-COMPARE(1)