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5
votes
1
answer
85
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1
answer
How to print lines of two file where column 2 and 3 of File 1 fall in between column 2 and 3 of file 2
python awk bash written 8 days ago by akinyemiibukun • 20 • updated 8 days ago by Pierre Lindenbaum ♦ 122k
3
votes
1
answer
77
views
1
answer
How to generate a combined read count txt file with header as file name
R bash awk linux written 10 days ago by Bioinfonext • 160
31
votes
5
answers
12k
views
8 follow
5
answers
Quick One Liner For Fastq Header Renaming
fastq awk written 6.5 years ago by Josh Herr ♦ 5.7k • updated 11 days ago by ATpoint ♦ 23k
3
votes
2
answers
157
views
7 follow
2
answers
How to find those files name which contains specific symbol i.e. underscore sign in column2?
find R grep awk written 14 days ago by sidrarafi89 • 10 • updated 14 days ago by bruce.moran • 650
12
votes
1
answer
184
views
7 follow
1
answer
extract lines with multiple conditions on multiple fields/column
grep sed awk written 23 days ago by Sam • 10 • updated 22 days ago by arup • 1.7k
1
vote
1
answer
189
views
5 follow
1
answer
How to filter GTF file and only print lines where the tag is a certain value?
gtf awk written 24 days ago by Tails • 30
3
votes
1
answer
2.0k
views
1
answer
Modifying fasta header
perl python sed unix awk written 5.1 years ago by empyrean999 • 160 • updated 26 days ago by RamRS ♦ 24k
4
votes
3
answers
168
views
6 follow
3
answers
Convert a two-column file to a single file with interlayed rows
fasta bash sequence awk paste written 5 weeks ago by JGuVa • 10
1
vote
2
answers
153
views
2
answers
How to remove all characters after a specific pattern?
linux sed rna-seq awk written 5 weeks ago by star • 190 • updated 5 weeks ago by Jeffin Rockey • 1.1k
2
votes
2
answers
6.9k
views
2
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How To Extract Reads With Wrong Insert Size With Samtools
bam samtools awk written 6.8 years ago by Assa Yeroslaviz • 1.2k • updated 5 weeks ago by Biostar ♦♦ 20
5
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3
answers
2.7k
views
3
answers
How To Extract Gene Names From An Unstructured Text File?
awk written 6.4 years ago by bioinfo • 740 • updated 9 weeks ago by tomluec • 60
8
votes
2
answers
191
views
7 follow
2
answers
new file with line in common
bash awk written 10 weeks ago by amandinelecerfdefer • 20
21
votes
4
answers
228
views
7 follow
4
answers
Remove double vertical bar "||" at the end of the sequence in a fasta file
fasta sed awk written 11 weeks ago by Ambika • 30 • updated 11 weeks ago by SMK • 1.8k
1
vote
1
answer
152
views
1
answer
Bioawk - using bash variables
software error awk written 12 weeks ago by spiral01 • 100 • updated 12 weeks ago by SMK • 1.8k
3
votes
1
answer
122
views
1
answer
modify a file by deleting what is not contained in a second file
awk written 12 weeks ago by amandinelecerfdefer • 20 • updated 12 weeks ago by SMK • 1.8k
4
votes
1
answer
174
views
1
answer
How to subset a set of variations from a VCF on specific chromosome and between 2 postions?
vcf subset awk bash written 3 months ago by Defne • 0
2
votes
2
answers
733
views
2
answers
Extract gene lists using two files
shell script unix awk written 23 months ago by bk11 • 30 • updated 3 months ago by Biostar ♦♦ 20
0
votes
2
answers
161
views
2
answers
replace content of a column by the content of a variable
grep bash awk written 3 months ago by amandinelecerfdefer • 20
5
votes
1
answer
190
views
1
answer
print non match to list lines of GTF file
grep bash awk written 3 months ago by Sam • 120
8
votes
1
answer
219
views
1
answer
Using awk or sed to edit a column in a gtf file
awk sed gft linux written 3 months ago by imda • 10 • updated 3 months ago by geek_y ♦ 9.8k
6
votes
2
answers
127
views
6 follow
2
answers
Extract and retain only chromosome info in GWAS sumstats file
bash sed gwas sumstats munging awk written 3 months ago by camerond • 100 • updated 3 months ago by shawn.w.foley • 1.0k
3
votes
1
answer
136
views
1
answer
awk to organize bed file
bed awk written 4 months ago by flogin • 150 • updated 4 months ago by finswimmer ♦ 12k
5
votes
3
answers
249
views
7 follow
3
answers
compare two columns of two files
awk bash written 4 months ago by Sam • 120 • updated 4 months ago by brett.vanderwerff • 130
1
vote
0
answers
194
views
0
answers
Use AWK to interrogate one file through another rather than for and while loops
forloop else awk if exons written 5 months ago by s1667153 • 0
0
votes
1
answer
865
views
6 follow
1
answer
How to count the length of fasta sequences?
fasta python shell scripting grep awk written 5 months ago by Dineshkumar K • 10 • updated 5 months ago by fhsantanna • 440
3
votes
2
answers
191
views
2
answers
Modify BED with poliregions
bed bash awk written 6 months ago by v82masae • 140 • updated 6 months ago by Pierre Lindenbaum ♦ 122k
6
votes
1
answer
229
views
1
answer
Extract in specific column with patter file
grep awk written 6 months ago by flogin • 150 • updated 6 months ago by Kevin Blighe ♦ 48k
3
votes
1
answer
248
views
1
answer
Splitting string in a column using character
regex sed snp awk written 6 months ago by sofie_carolina • 20 • updated 6 months ago by zx8754 ♦ 8.2k
5
votes
2
answers
271
views
2
answers
How to rename duplicate fasta headers after the first underscore '_'?
fasta duplicate header sed awk written 6 months ago by MB • 20 • updated 6 months ago by Carambakaracho • 1.6k
17
votes
4
answers
523
views
10 follow
4
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Remove duplicates in an extremely large text file
uniq plink snp awk written 7 months ago by OAJn8634 • 50 • updated 7 months ago by Santosh Anand ♦ 4.9k
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