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<prev • 210 results • page 1 of 7 • next >
2
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80
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6 follow
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Getting unusual characters while generating output files in a bash script
sh bash unix linux written 12 hours ago by S AR • 50 • updated 12 hours ago by finswimmer ♦ 7.9k
3
votes
0
answers
120
views
0
answers
Extract Hard-clipped and soft-clipped values from fifth column
perl sequencing awk bash written 1 day ago by Ram • 130 • updated 1 day ago by Pierre Lindenbaum ♦ 115k
0
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0
answers
72
views
0
answers
Bulk quality interleaving with bbmap reformat command
reformat loop bbduk bbmap bash written 4 days ago by infenit101 • 10
10
votes
3
answers
203
views
5 follow
3
answers
Convert two-column txt to multiple column csv
python bash conversion R written 11 days ago by bwczech • 40 • updated 10 days ago by cpad0112 • 10k
0
votes
0
answers
86
views
0
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Trim fasta to a specific gene location
fasta alignment sequence trim bash written 19 days ago by James • 20
1
vote
3
answers
122
views
6 follow
3
answers
Calculate CG content in a fastq file
rna-seq bash written 21 days ago by luzglongoria • 0 • updated 21 days ago by finswimmer ♦ 7.9k
0
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0
answers
101
views
0
answers
bash & quickGO to download gene symbols of a GO term
annotations go bash written 22 days ago by Adrian Pelin • 2.2k
5
votes
1
answer
226
views
1
answer
awk and sed in bash script and no output
bash sed awk written 26 days ago by bk11 • 30 • updated 26 days ago by Alex Reynolds ♦ 26k
2
votes
1
answer
98
views
1
answer
Trimming by fastp for multiple PE fastq.gz files using shell script
shellscript fastp rna-seq bash written 4 weeks ago by swarajgaikwad15 • 0 • updated 4 weeks ago by Pierre Lindenbaum ♦ 115k
3
votes
1
answer
164
views
1
answer
Bash: salmon command not found
salmon rna-seq bash written 4 weeks ago by ab123 • 40
3
votes
2
answers
205
views
5 follow
2
answers
combine columns from multiple files
bash written 5 weeks ago by bk11 • 30 • updated 4 weeks ago by cpad0112 • 10k
10
votes
2
answers
217
views
2
answers
Filter VCF with bash commands
vcf grep awk bash written 5 weeks ago by ajuiwl • 30 • updated 5 weeks ago by dariober ♦ 9.7k
1
vote
6
answers
183
views
5 follow
6
answers
Best tool for Motif enrichment of TFs
R chip-seq rna-seq bash written 6 weeks ago by lucatucciarone • 40
1
vote
1
answer
133
views
1
answer
Looping over vcf files
linux bash written 9 weeks ago by paolo002 • 90 • updated 5 weeks ago by zx8754 ♦ 6.0k
0
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0
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181
views
0
answers
parallel bwa mem with compressed fastq.bz2 files
bzip2 bwa-mem linux bwa bash written 6 weeks ago by Amirosein • 70
6
votes
1
answer
168
views
1
answer
How do I loop over a list of gene symbols to extract sequences from NCBI?
ncbi eutils bash written 6 weeks ago by MAPK • 1.3k
4
votes
1
answer
105
views
1
answer
Can I get AddOrReplaceReadGroups working for multiple files?
picard tools bash written 6 weeks ago by James Reeve • 30 • updated 6 weeks ago by b.d237 • 40
9
votes
1
answer
205
views
7 follow
1
answer
Bash scripting FastQC for multiple fastq files in multiple directories
bash rna-seq fastqc written 6 weeks ago by rc1253 • 20 • updated 6 weeks ago by Paul • 1.2k
10
votes
3
answers
226
views
3
answers
compare two file to retrieve common lines
bash awk written 6 weeks ago by Sam • 80
1
vote
1
answer
226
views
1
answer
Xscore Installation Issue using Bash
installation csh c shell xscore bash written 10 weeks ago by Neuls • 0 • updated 6 weeks ago by John Marshall • 1.4k
5
votes
4
answers
192
views
5 follow
4
answers
How to reformat (i.e. to clean) NCBI .fasta archives into a singleline .fasta with only the unique identifier before each seqeunce?
ncbi fasta linux bash written 8 weeks ago by johnnytam100 • 90 • updated 7 weeks ago by Chirag Parsania • 1.2k
20
votes
4
answers
506
views
9 follow
4
answers
manipulating a file by R or bash?
text parsing R bash written 7 weeks ago by Za • 120 • updated 7 weeks ago by Chirag Parsania • 1.2k
2
votes
2
answers
152
views
2
answers
compare two tables in files
perl linux bash written 9 weeks ago by erickfqqa • 10 • updated 8 weeks ago by cpad0112 • 10k
9
votes
2
answers
213
views
2
answers
cut columns in txt tab separated file
R linux bash written 11 weeks ago by ulises.rodriguez • 0 • updated 11 weeks ago by RamRS ♦ 19k
4
votes
2
answers
232
views
2
answers
If a string appears twice in column 1, select the higher value in column 2
awk bash written 4 months ago by drkennetz • 360 • updated 12 weeks ago by zx8754 ♦ 6.0k
1
vote
1
answer
1.9k
views
1
answer
Can't sort gff file ordered by chromosome (ch1,chr2,chr3......chrX).
next-gen rna-seq bash written 2.8 years ago by unique379 • 50 • updated 12 weeks ago by RamRS ♦ 19k
3
votes
1
answer
119
views
1
answer
How do I read a logfile?
next-gen galaxy logfile bash written 3 months ago by c.clarido • 40 • updated 3 months ago by Devon Ryan ♦ 86k
8
votes
1
answer
352
views
1
answer
Editing fasta headers with bash
fasta script fasta headers bash written 3 months ago by James • 20 • updated 3 months ago by jrj.healey ♦ 9.1k
13
votes
4
answers
270
views
7 follow
4
answers
Splitting a fasta file based on the number of headers.
fasta python bash written 3 months ago by sicat.paolo20 • 20 • updated 3 months ago by Alex Reynolds ♦ 26k
6
votes
3
answers
367
views
3
answers
How to extract certain tag value by key from sam/bam file?
awk linux samtools sam bash written 3 months ago by yech1990 • 20 • updated 3 months ago by Pierre Lindenbaum ♦ 115k
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