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1
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65
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How to subset a set of variations from a VCF on specific chromosome and between 2 postions?
vcf subset awk bash written 5 days ago by Defne • 0 • updated 5 days ago by finswimmer ♦ 11k
2
votes
2
answers
674
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2
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Extract gene lists using two files
shell script unix awk written 20 months ago by bk11 • 30 • updated 7 days ago by Biostar ♦♦ 20
0
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2
answers
97
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2
answers
replace content of a column by the content of a variable
grep bash awk written 11 days ago by amandinelecerfdefer • 10
5
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1
answer
109
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1
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print non match to list lines of GTF file
grep bash awk written 11 days ago by Sam • 110
8
votes
1
answer
137
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1
answer
Using awk or sed to edit a column in a gtf file
awk sed gft linux written 15 days ago by imda • 10 • updated 15 days ago by geek_y ♦ 9.7k
6
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2
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76
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6 follow
2
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Extract and retain only chromosome info in GWAS sumstats file
bash sed gwas sumstats munging awk written 24 days ago by camerond • 70 • updated 24 days ago by shawn.w.foley • 710
3
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1
answer
88
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1
answer
awk to organize bed file
bed awk written 26 days ago by flogin • 110 • updated 26 days ago by finswimmer ♦ 11k
5
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3
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193
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7 follow
3
answers
compare two columns of two files
awk bash written 7 weeks ago by Sam • 110 • updated 7 weeks ago by brett.vanderwerff • 120
1
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0
answers
127
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0
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Use AWK to interrogate one file through another rather than for and while loops
forloop else awk if exons written 9 weeks ago by s1667153 • 0
0
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1
answer
369
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6 follow
1
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How to count the length of fasta sequences?
fasta python shell scripting grep awk written 9 weeks ago by Dineshkumar K • 10 • updated 9 weeks ago by fhsantanna • 440
3
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2
answers
136
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2
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Modify BED with poliregions
bed bash awk written 3 months ago by v82masae • 130 • updated 3 months ago by Pierre Lindenbaum ♦ 120k
6
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1
answer
172
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1
answer
Extract in specific column with patter file
grep awk written 3 months ago by flogin • 110 • updated 3 months ago by Kevin Blighe ♦ 43k
3
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1
answer
184
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1
answer
Splitting string in a column using character
regex sed snp awk written 3 months ago by sofie_carolina • 20 • updated 3 months ago by zx8754 ♦ 7.5k
5
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2
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183
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2
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How to rename duplicate fasta headers after the first underscore '_'?
fasta duplicate header sed awk written 3 months ago by MB • 20 • updated 3 months ago by Carambakaracho • 1.2k
17
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4
answers
382
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10 follow
4
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Remove duplicates in an extremely large text file
uniq plink snp awk written 4 months ago by OAJn8634 • 50 • updated 4 months ago by Santosh Anand ♦ 4.8k
2
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0
answers
278
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5 follow
0
answers
How to get a FASTA file where you filter by length to exclude sortest and longest 10%
fasta alignment sequence linux awk written 4 months ago by namarino • 0 • updated 4 months ago by RamRS ♦ 21k
10
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1
answer
220
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5 follow
1
answer
How to write a code in Linux to manipulate a large file with grep/awk
R linux rs chr awk written 4 months ago by OAJn8634 • 50 • updated 4 months ago by Alex Reynolds ♦ 28k
0
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0
answers
217
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5 follow
0
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multiple DNA file Sliced to a fixed length substring by index/location
python bash awk written 5 months ago by jamesdong • 0
3
votes
1
answer
243
views
1
answer
Awk, Sed, Grep to create a sequential numerical text replacement in my gtf file
grep sed awk written 5 months ago by sdbaney • 0 • updated 5 months ago by RamRS ♦ 21k
1
vote
1
answer
239
views
1
answer
Add double qoutes around transcript_id in gtf file
gtf stringtie rna-seq awk written 5 months ago by BioBaby • 0 • updated 5 months ago by finswimmer ♦ 11k
3
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2
answers
705
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5 follow
2
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Count the number of homozygous and heterozygous variants in VCF file
1000genomes allele awk count written 6 months ago by aadhirareddy1323 • 20
3
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0
answers
301
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0
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Extract Hard-clipped and soft-clipped values from fifth column
perl sequencing awk bash written 6 months ago by Ram • 130 • updated 6 months ago by Pierre Lindenbaum ♦ 120k
5
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1
answer
324
views
1
answer
How to separate a strain of MTB drug wise?
python grep sed loop awk written 8 months ago by S AR • 50
2
votes
1
answer
381
views
1
answer
is there a way to get SRA info (Paired Library, Sample id, Seq Tech... etc) using a list of SRA IDS?
sra awk written 7 months ago by S AR • 50
11
votes
4
answers
397
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4
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Extract a word from inside the text
R awk regex written 7 months ago by mostafarafiepour • 60 • updated 7 months ago by cpad0112 ♦ 11k
5
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1
answer
481
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1
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awk and sed in bash script and no output
bash sed awk written 7 months ago by bk11 • 30 • updated 7 months ago by Alex Reynolds ♦ 28k
5
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2
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903
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2
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SRA files bulk downloads
wget awk aspera recursive linux written 7 months ago by S AR • 50
10
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2
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565
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2
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Filter VCF with bash commands
vcf grep awk bash written 7 months ago by ajuiwl • 30 • updated 7 months ago by dariober ♦ 10k
1
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0
answers
352
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0
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Reformating bedGraph files in shell script
bedgraph ucsc bigwig chr awk written 9 months ago by m93 • 150 • updated 7 months ago by Biostar ♦♦ 20
3
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1
answer
269
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1
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Separate fasta file for each locus
fasta radseq awk written 7 months ago by NM • 0
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