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117
votes
9
answers
91k
views
61 follow
9
answers
Useful Bash Commands To Handle Fasta Files
fasta list command-line bash written 8.4 years ago by Anima Mundi2.7k • updated 2.7 years ago by Joe17k
62
votes
5
answers
3.3k
views
10 follow
5
answers
What Are The Bioinformatics-Related Aliases Or Functions In Your Bashrc
bash written 8.1 years ago by brentp23k • updated 8.1 years ago by Andreas2.5k
32
votes
3
answers
8.7k
views
13 follow
3
answers
Picking Random Genomic Positions
perl bedtools bash written 8.0 years ago by PoGibas4.8k
17
votes
0
answers
1.2k
views
11 follow
0
answers
Tutorial: Bash One-liners collection on Github
bash-oneliners tutorial bash shell linux bioinformatics written 14 months ago by nim.1111.ou150 • updated 8 months ago by cionsystemsi0
4
votes
1
answer
3.9k
views
1
answer
Using Bash For Gatk Pipeline
gatk script bash written 6.5 years ago by Paul1.4k
7
votes
0
answers
2.5k
views
0
answers
16
votes
1
answer
2.5k
views
1
answer
10
votes
3
answers
8.2k
views
9 follow
3
answers
bash script for RNA seq alignment with STAR
bash star rna-seq script written 2.9 years ago by nicole p40 • updated 2.9 years ago by mforde841.2k
21
votes
6
answers
1.2k
views
11 follow
6
answers
changing the name of files
bash awk written 2.2 years ago by Sam140 • updated 2.2 years ago by shenwei3565.2k
16
votes
1
answer
9.6k
views
7 follow
1
answer
Calling Python Script From Bash Console While Using Gnu Parallel
python parallel bash written 8.9 years ago by NPalopoli290 • updated 8.9 years ago by tange190
15
votes
3
answers
7.0k
views
9 follow
3
answers
How To Remove The Comments From A List Of Fasta Sequences
fasta awk bash written 8.4 years ago by Anima Mundi2.7k • updated 8.4 years ago by Frédéric Mahé3.0k
3
votes
3
answers
1.4k
views
3
answers
Print First Occurence Of A Line
perl fasta awk bash written 7.2 years ago by federico.gaiti70 • updated 7.2 years ago by Kenosis1.2k
18
votes
6
answers
13k
views
11 follow
6
answers
Printing Reverse Complement Of Dna In Single-Line Perl
perl sequence bash written 7.2 years ago by soosus80 • updated 4.3 years ago by winter_li60
1
vote
0
answers
1.4k
views
0
answers
5
votes
1
answer
5.6k
views
5 follow
1
answer
R1 R2 orientation (RNA-seq)
htseq pipeline rna-seq bash written 6.0 years ago by biotech540
23
votes
3
answers
3.5k
views
3
answers
Bash tutorial for biologists?
tutorial bash written 5.2 years ago by Parham1.5k • updated 5.2 years ago by Josh Herr5.7k
1
vote
2
answers
2.0k
views
2
answers
Efficient means of mass converting Affy SNP IDs to dbSNP rs ids
perl python affy dbsnp bash written 5.1 years ago by devenvyas630 • updated 4.7 years ago by stolarek.ir650
6
votes
2
answers
4.6k
views
2
answers
Filtering nth length from mapped SAM/BAM file.
mirnaseq shell rna-seq bash written 5.0 years ago by unique37990 • updated 5.0 years ago by Pierre Lindenbaum129k
10
votes
2
answers
2.1k
views
2
answers
Generating shell scripts
shell bash written 4.7 years ago by ebrown1955300 • updated 4.7 years ago by Pierre Lindenbaum129k
31
votes
4
answers
2.6k
views
4
answers
Job Manager to parallelize otherwise consecutive bash scripts..?
parallel xargs bash written 4.5 years ago by John12k • updated 4.5 years ago by ole.tange3.8k
5
votes
2
answers
1.4k
views
2
answers
bash for loop with two type of files
for loop bash written 4.4 years ago by mbk0asis550 • updated 4.4 years ago by piet1.7k
2
votes
1
answer
1.2k
views
1
answer
Creating a consensus based on 'x' number of fasta files
perl alignment sequence bash written 4.3 years ago by matthew.m.hernandez30 • updated 4.3 years ago by Pierre Lindenbaum129k
9
votes
3
answers
5.8k
views
3
answers
How to remove a list of reads from fastq file?
fastq script shell bash written 4.0 years ago by Tao380 • updated 4.0 years ago by gangireddy160
3
votes
1
answer
935
views
5 follow
1
answer
Retrieve directory structure of ftp.ncbi - python or bash
python bash written 3.5 years ago by andrewsanchez10 • updated 23 months ago by Alex Reynolds30k
17
votes
3
answers
1.0k
views
8 follow
3
answers
why does this pipe work
software error bash written 3.2 years ago by nkinney0630 • updated 3.2 years ago by John12k
10
votes
1
answer
8.0k
views
7 follow
1
answer
Tutorial: Removing rows with duplicate values based on 1 or more key values - linux awk
duplicates tutorial linux awk bash written 2.8 years ago by Kevin Blighe61k • updated 2.8 years ago by Alex Reynolds30k
2
votes
0
answers
1.2k
views
5 follow
0
answers
Command line to add algorithm option for MAFFT using GUIDANCE2
alignment bash written 2.4 years ago by NicoN6420 • updated 15 days ago by milesdroberts0
1
vote
1
answer
593
views
1
answer
How to input multiple files from a list of files
bash rna-seq linux written 2.3 years ago by Goku10 • updated 2.3 years ago by Alex Reynolds30k
7
votes
2
answers
779
views
7 follow
2
answers
32
votes
5
answers
2.4k
views
9 follow
5
answers
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