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2
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2
answers
66
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2
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how to change bam file chromosome names using sed or awk?
bam awk written 5 days ago by qianxu0517 • 0 • updated 5 days ago by swbarnes2 ♦ 8.1k
6
votes
3
answers
155
views
5 follow
3
answers
Split a FastQ file into smaller files
famas fastq bbmap awk written 9 days ago by Matthias Zepper • 70 • updated 7 days ago by genomax ♦ 87k
6
votes
2
answers
116
views
2
answers
How to add column to table with awk
bed-files awk unix shell bash written 12 days ago by linelr • 10 • updated 12 days ago by Shalu Jhanwar • 350
6
votes
2
answers
135
views
2
answers
awk column number is a variable
awk rna-seq bash written 13 days ago by DBScan • 20 • updated 12 days ago by user_without_id • 140
0
votes
1
answer
86
views
1
answer
Extract all seqs bewteen two seqs ID in Fastq
fastq sed awk written 18 days ago by erwan.scaon • 790 • updated 18 days ago by Pierre Lindenbaum ♦ 129k
4
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0
answers
308
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5 follow
0
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Script makes different file then the manual command, but the command is the same
linux pipeline awk written 4 weeks ago by stan.aanhane • 30
1
vote
1
answer
625
views
1
answer
MSA ID replacement with a list ID
python bash awk written 2.8 years ago by lessismore • 880 • updated 4 weeks ago by Biostar ♦♦ 20
7
votes
4
answers
130
views
5 follow
4
answers
Change the field separator
R field separator awk written 5 weeks ago by DataFanatic • 240 • updated 5 weeks ago by Jeffin Rockey • 1.1k
1
vote
1
answer
117
views
1
answer
renaming fasta file with part of fasta header
sed awk written 6 weeks ago by KG • 10 • updated 6 weeks ago by genomax ♦ 87k
3
votes
1
answer
141
views
1
answer
How to filter a VCF file with a list of CHR or contig IDs?
vcf chromosome contigs vcftools awk written 7 weeks ago by lexic2713 • 10 • updated 7 weeks ago by drkennetz • 500
3
votes
4
answers
207
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6 follow
4
answers
Comparing multiple columns from 2 files using awk, perl or python
perl python awk written 7 weeks ago by aboozar.soorni • 30
6
votes
1
answer
108
views
1
answer
Grep VCF position awk
vcf grep awk written 7 weeks ago by the_cowa • 40 • updated 7 weeks ago by ATpoint ♦ 36k
3
votes
3
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146
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3
answers
unix, awk or sed question on splitting lines
sed unix awk written 7 weeks ago by geneart$$ • 20 • updated 7 weeks ago by genomax ♦ 87k
0
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2
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182
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8 follow
2
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How do I match two files using one column as reference?
command line awk written 8 weeks ago by eennadi • 0 • updated 8 weeks ago by Yean • 120
1
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0
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170
views
0
answers
Extract list of gene coordinates from gff file
gene python gff grep awk written 8 weeks ago by the_cowa • 40
2
votes
0
answers
108
views
0
answers
Filtering Augustus GTF based on protein sequence
augustus gtf protein sequence awk written 8 weeks ago by jamie.pike • 20
0
votes
1
answer
119
views
1
answer
Bed file grepping from the list
bed grep awk written 8 weeks ago by the_cowa • 40 • updated 8 weeks ago by Pierre Lindenbaum ♦ 129k
1
vote
1
answer
125
views
1
answer
per sample mean coverage and standard deviation
bash awk written 11 weeks ago by ijlal.hyder2012 • 10 • updated 11 weeks ago by husensofteng • 260
0
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2
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131
views
2
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removing rows if X percentages of columns / fields are empty
next-gen sed snp awk written 12 weeks ago by waqasnayab • 200 • updated 11 weeks ago by cpad0112 ♦ 13k
3
votes
1
answer
164
views
1
answer
Extracting subset from GFF3 file based on sequence headers from a FASTA file
fasta gff3 awk written 12 weeks ago by adityabandla • 30 • updated 12 weeks ago by lieven.sterck ♦ 8.2k
4
votes
3
answers
169
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5 follow
3
answers
Extract fasta sequences based on ids file
fasta perl sequence sed awk written 12 weeks ago by marcelolaia • 10
0
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1
answer
176
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1
answer
Edit a Multifasta File Through awk
fasta unix awk written 12 weeks ago by pthom010 • 0
0
votes
0
answers
106
views
0
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Controlling expressions with Awk
gawk bash terminal awk written 12 weeks ago by aaa.bioinfo • 0 • updated 12 weeks ago by genomax ♦ 87k
2
votes
1
answer
193
views
1
answer
awk gsub question
forum text editing awk written 3 months ago by sor.draga • 0 • updated 3 months ago by ATpoint ♦ 36k
4
votes
2
answers
110
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2
answers
How to calculate number of positions covered by at least 10 times in bam file?
bedtools alignment coverage bam awk written 3 months ago by rimgubaev • 180 • updated 3 months ago by ATpoint ♦ 36k
0
votes
1
answer
254
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1
answer
Mismatch between base and target genotypes causing a "no variants remained" error in PRSice
prsice linux awk snp bash written 3 months ago by arcadian • 0 • updated 3 months ago by Sam • 3.0k
0
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0
answers
137
views
0
answers
Matching Query ID and Subject ID in a new file
blastn awk written 3 months ago by jamie.pike • 20
0
votes
0
answers
117
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0
answers
How to extract multi-line protein sequences with Ids present in headers ?
perl sed awk written 4 months ago by sharmatina189059 • 40 • updated 4 months ago by Pierre Lindenbaum ♦ 129k
9
votes
1
answer
198
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6 follow
1
answer
combine fasta sequences in combination from two different files
fasta unix shell awk written 5 months ago by shome • 0 • updated 5 months ago by Pierre Lindenbaum ♦ 129k
7
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3
answers
157
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8 follow
3
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Extract each column from a txt file and save into separate files, with the first line as file names
shell awk written 5 months ago by Cecelia • 20 • updated 5 months ago by Arup Ghosh ♦ 2.6k
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