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<prev • 205 results • page 1 of 7 • next >
1
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3
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94
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6 follow
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Calculate CG content in a fastq file
rna-seq bash written 9 hours ago by luzglongoria • 0 • updated 7 hours ago by finswimmer ♦ 7.0k
0
votes
0
answers
84
views
0
answers
bash & quickGO to download gene symbols of a GO term
annotations go bash written 1 day ago by Adrian Pelin • 2.2k
5
votes
1
answer
184
views
1
answer
awk and sed in bash script and no output
bash sed awk written 5 days ago by bk11 • 30 • updated 5 days ago by Alex Reynolds ♦ 26k
2
votes
1
answer
70
views
1
answer
Trimming by fastp for multiple PE fastq.gz files using shell script
shellscript fastp rna-seq bash written 11 days ago by swarajgaikwad15 • 0 • updated 11 days ago by Pierre Lindenbaum ♦ 114k
3
votes
1
answer
127
views
1
answer
Bash: salmon command not found
salmon rna-seq bash written 12 days ago by ab123 • 40
3
votes
2
answers
178
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5 follow
2
answers
combine columns from multiple files
bash written 14 days ago by bk11 • 30 • updated 13 days ago by cpad0112 • 10k
10
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2
answers
176
views
2
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Filter VCF with bash commands
vcf grep awk bash written 14 days ago by ajuiwl • 30 • updated 14 days ago by dariober ♦ 9.7k
1
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6
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145
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5 follow
6
answers
Best tool for Motif enrichment of TFs
R chip-seq rna-seq bash written 21 days ago by lucatucciarone • 40
1
vote
1
answer
119
views
1
answer
Looping over vcf files
linux bash written 6 weeks ago by paolo002 • 60 • updated 18 days ago by zx8754 ♦ 5.7k
0
votes
0
answers
152
views
0
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parallel bwa mem with compressed fastq.bz2 files
bzip2 bwa-mem linux bwa bash written 22 days ago by Amirosein • 70
6
votes
1
answer
146
views
1
answer
How do I loop over a list of gene symbols to extract sequences from NCBI?
ncbi eutils bash written 22 days ago by MAPK • 1.3k
4
votes
1
answer
85
views
1
answer
Can I get AddOrReplaceReadGroups working for multiple files?
picard tools bash written 22 days ago by James Reeve • 30 • updated 22 days ago by b.d237 • 30
9
votes
1
answer
164
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7 follow
1
answer
Bash scripting FastQC for multiple fastq files in multiple directories
bash rna-seq fastqc written 25 days ago by rc1253 • 20 • updated 25 days ago by Paul • 1.2k
10
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3
answers
210
views
3
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compare two file to retrieve common lines
bash awk written 26 days ago by Sam • 80
1
vote
1
answer
186
views
1
answer
Xscore Installation Issue using Bash
installation csh c shell xscore bash written 7 weeks ago by Neuls • 0 • updated 26 days ago by John Marshall • 1.4k
5
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4
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172
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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 5 weeks ago by johnnytam100 • 90 • updated 4 weeks ago by Chirag Parsania • 1.2k
20
votes
4
answers
493
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9 follow
4
answers
manipulating a file by R or bash?
text parsing R bash written 4 weeks ago by Za • 120 • updated 4 weeks ago by Chirag Parsania • 1.2k
2
votes
2
answers
139
views
2
answers
compare two tables in files
perl linux bash written 6 weeks ago by erickfqqa • 10 • updated 5 weeks ago by cpad0112 • 10k
9
votes
2
answers
198
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2
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cut columns in txt tab separated file
R linux bash written 8 weeks ago by ulises.rodriguez • 0 • updated 8 weeks ago by RamRS ♦ 19k
4
votes
2
answers
224
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 9 weeks ago by zx8754 ♦ 5.7k
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 2.7 years ago by unique379 • 50 • updated 9 weeks ago by RamRS ♦ 19k
3
votes
1
answer
107
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1
answer
How do I read a logfile?
next-gen galaxy logfile bash written 10 weeks ago by c.clarido • 40 • updated 10 weeks ago by Devon Ryan ♦ 86k
9
votes
1
answer
328
views
5 follow
1
answer
Editing fasta headers with bash
fasta script fasta headers bash written 11 weeks ago by James • 20 • updated 11 weeks ago by jrj.healey ♦ 8.8k
13
votes
4
answers
261
views
7 follow
4
answers
Splitting a fasta file based on the number of headers.
fasta python bash written 11 weeks ago by sicat.paolo20 • 20 • updated 11 weeks ago by Alex Reynolds ♦ 26k
6
votes
3
answers
311
views
3
answers
How to extract certain tag value by key from sam/bam file?
awk linux samtools sam bash written 11 weeks ago by yech1990 • 20 • updated 11 weeks ago by Pierre Lindenbaum ♦ 114k
2
votes
2
answers
176
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2
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Fred's metabarcoding pipeline : Build the OTU table / keyerror in python script
metabarcoding python vsearch ubuntu bash written 12 weeks ago by jojo_ezz • 10 • updated 11 weeks ago by Frédéric Mahé • 2.9k
8
votes
1
answer
256
views
1
answer
Subset of genes with at least 1 intron larger than 5000 kbp
gtf R intron_length genomicfeatures bash written 12 weeks ago by shania90.lk • 10
2
votes
1
answer
355
views
1
answer
download refseq of thousand of assembly file from NCBI
wget fasta refseq bash written 12 weeks ago by Shelle • 0
4
votes
1
answer
279
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1
answer
Could someone explain this perl command?
perl bash written 3 months ago by Seq225 • 70
7
votes
3
answers
298
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6 follow
3
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featureCounts and bash
featurecounts rna-seq bash written 3 months ago by cilgaiscan • 30 • updated 3 months ago by jkkim • 20
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