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Filtering for tag: extraction • reset
1
vote
9
replies
1.3k
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In R: Print column names if value is greater than a value in a different column.
R data extraction
updated 11 months ago by 8.6k • written 11 months ago by • 0
2
votes
6
replies
645
views
Failure in extracting reads from bam file due to unknown reference
alignment bam extraction reference
17 months ago by marongiu.luigi ▴ 540
2
votes
3
replies
571
views
How can I Extract PMID only for a query in a text file while searching it on NCBI pubmed?
sequence literature extraction alignment next-gen
updated 18 months ago by • 0 • written 2.1 years ago by • 0
4
votes
7
replies
784
views
Extracting contaminated reads from the sequenced data
genome sequencing extraction illumina
updated 2.3 years ago by 99k • written 2.3 years ago by ▴ 50
4
votes
11
replies
1.5k
views
grep/awk issue: can't extract sequences from a fasta file
fasta sequence extraction grep shell
updated 2.4 years ago by 20 • written 2.8 years ago by ▴ 10
0
votes
1
reply
447
views
Features extraction from protein 3D structures
proteins features extraction 3D strcuture
2.5 years ago by biotechuos4 • 0
4
votes
8
replies
4.1k
views
Extract Only Paired-End Reads That Map A Specific Interval
bedtools extraction
updated 2.5 years ago by • 0 • written 8.6 years ago by 9.3k
0
votes
3
replies
565
views
Extract sequences which do not have blast hits
RNA-Seq sequence blast extraction
2.6 years ago by karthic ▴ 100
5
votes
11
replies
2.2k
views
subgraph extraction based on the edges weights and graph connectivity
R graph subgraph extraction weight
updated 2.8 years ago by ▴ 440 • written 2.8 years ago by ▴ 240
0
votes
0
replies
995
views
Extraction of 16S hypervariable regions
16S hypervariable regions software extraction
3.4 years ago by jerald • 0
2
votes
3
replies
1.5k
views
Extracting Protein Sequences
protein sequence extraction
updated 3.6 years ago by 20 • written 9.6 years ago by ▴ 280
12
votes
10
replies
4.6k
views
How to extract contigs from FASTA file which contains specific sequence
fasta contig extraction find
updated 3.7 years ago by 17k • written 6.3 years ago by ★ 1.4k
3
votes
12
replies
1.7k
views
how to extract a random set of SNP from a SNP table
SNP random sample extraction
updated 3.9 years ago by 32k • written 3.9 years ago by ▴ 180
0
votes
0
replies
2.3k
views
SNPSift Genotype Extraction
snpsift genotype extraction
updated 5.9 years ago by 20 • written 5.9 years ago by ▴ 10
6
votes
13
replies
3.3k
views
6 follow
Partial Cds Extraction From Incomplete Transcripts
cds extraction rna
updated 6.6 years ago by 20 • written 9.3 years ago by ▴ 200
1
vote
8
replies
3.7k
views
Get All Alleles Of 1 Column In Bam File
bam position extraction read
updated 7.1 years ago by ▴ 60 • written 9.4 years ago by ▴ 10
0
votes
2
replies
5.1k
views
Motif Extraction Using R Package?
bioinformatics motif extraction r
updated 7.4 years ago by ▴ 70 • written 7.4 years ago by • 0
3
votes
6
replies
3.9k
views
Extracting The Features From Genbank File
genbank feature extraction
updated 7.6 years ago by 20 • written 7.7 years ago by ▴ 630
2
votes
6
replies
3.2k
views
How To Extract Only Geneid From Fasta Header?
sequence extraction fasta perl
updated 7.7 years ago by ★ 1.2k • written 7.7 years ago by ▴ 60
8
votes
3
replies
5.4k
views
A Way To Get Dna Sequence From Specific Coordinates Using An Online Service
sequence extraction
updated 7.9 years ago by 135k • written 7.9 years ago by ★ 4.0k
22
votes
20
replies
4.1k
views
How To Join Text Files By A Certain Column (Accession Id)
extraction
updated 8.2 years ago by ▴ 300 • written 8.2 years ago by ▴ 100
8
votes
6
replies
5.4k
views
Sra Toolkit For Pacbio
sra extraction
updated 8.4 years ago by ▴ 210 • written 8.4 years ago by ★ 3.1k
9
votes
6
replies
1.5k
views
Matching The Entries And Printing Data
sequence extraction id script
updated 8.5 years ago by 9.7k • written 8.5 years ago by ▴ 900
11
votes
16
replies
7.3k
views
6 follow
Help Me Finish This Perl Code To Extract A Column In A Table
perl data extraction
updated 8.5 years ago by ★ 7.3k • written 8.5 years ago by ▴ 50
1
vote
2
replies
2.3k
views
Contig Extraction From .Ace File
assembly extraction metagenomics
updated 8.6 years ago by 4.0k • written 8.6 years ago by • 0
1
vote
3
replies
4.2k
views
[Help]: Extracting Sequence From Fasta Using Blast Informations?
python biopython fasta blast extraction
8.7 years ago by francois.maginiot ▴ 10
24
votes
7
replies
25k
views
How To Extract Set Of Reads From Fastq (Or Eventually Fasta And Qual) Based On List Of Ids?
extraction read 454 fastq fasta
updated 8.9 years ago by 3.0k • written 8.9 years ago by 3.1k
6
votes
4
replies
1.3k
views
Experiment Data
data extraction
updated 8.9 years ago by 7.6k • written 8.9 years ago by ▴ 160
27
votes
6
replies
24k
views
How To Use Bedtools To Extract Promoters From A Mouse Bed File
bedtools bed extraction promoter fasta
updated 9.2 years ago by 11k • written 9.2 years ago by ★ 2.8k
13
votes
11
replies
9.0k
views
How To Extract Random Snps From Whole Genome Data?
snp extraction
updated 9.3 years ago by ▴ 980 • written 9.3 years ago by ▴ 40
1
vote
3
replies
2.2k
views
Extract A Subrange Of Sequences From A Genbank File
extraction genbank
updated 9.3 years ago by 135k • written 9.3 years ago by ▴ 20
2
votes
3
replies
1.8k
views
Extraction Of Part Of Different Grp Of Nucleotide Sequence In 10000 Of Sequences.
extraction sequence
updated 9.4 years ago by 5.2k • written 9.6 years ago by • 0
22
votes
11
replies
11k
views
9 follow
Bam : Extract Only Alignment With A Specific Length
bam rna alignment extraction length
updated 9.6 years ago by ▴ 850 • written 9.6 years ago by 9.3k
6
votes
6
replies
1.8k
views
Text Mining: Extracting Some Genes And Some Variations From An Article.
text identifiers extraction variant
updated 9.7 years ago by 4.3k • written 9.7 years ago by 135k
22
votes
5
replies
3.8k
views
Is There Any Tool To Extract Demanded Information From An Asn/Xml File?
xml human gene extraction
updated 10.1 years ago by 3.2k • written 10.6 years ago by ▴ 20
24
votes
11
replies
8.7k
views
7 follow
How To Extract Specific Coordinates From Multifasta File
extraction fasta coordinates
updated 10.1 years ago by ▴ 30 • written 10.1 years ago by ▴ 70
36 results • Page 1 of 1
Recent Votes
Comment: why my volcano plot looks strange?
Answer: What Tools/Libraries Do You Use To Visualize Genomic Feature Data?
Answer: How to get GO terms to specific to perticular biological process
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Recent Replies
Comment: Trimmomatic-0.36 not finding adapter directory by GenoMax 99k
Order of `fastq` file names is important for `trimmomatic`. Make sure that is correct.<br> Does `ls -lh /usr/local/bin/Trimmomatic-0.36/` …
Answer: What Tools/Libraries Do You Use To Visualize Genomic Feature Data? by cicindel ▴ 70
No love for [Tablet][1]? I'm quite surprised to not see it mentioned here. Of course, IGV is the classic, and Tablet is a bit simpler than …
Comment: How to download raw sequence data from GEO/SRA by cicindel ▴ 70
I tried to use the SRA toolkit a few months ago, I succesfully installed it and used `prefetch` to get the data, as per their tutorial, but…
Comment: Concatenating fasta files based on prefix ? by cpad0112 15k
If each group has `._1_1.txt.fa` and the pattern is exactly same as in OP, try this: ls *1_1.txt.fa | while read line; do echo ${line%…
Comment: Bioinformatics startup market analysis by grant.hovhannisyan ★ 2.1k
good luck!
Comment: Bioinformatics startup market analysis by gtechbio ▴ 30
Dear @juanjo75es, thank you for your input. We do agree that NGS data/metadata should be more accessible to public, in part also due to ini…
Comment: Bioinformatics startup market analysis by gtechbio ▴ 30
Dear @grant.hovhannisyan, thank you for the advice. In fact we are already in touch with two local genomics facilities, though as you have …
Answer: No annotation peaks when running homer by geneticatt ▴ 120
Try raising your p-value to make sure that they aren't all just being filtered out by that threshold (which seems pretty low). Edit: I may…
Comment: How to perform multiple alignment using MAFFT? by anikcropscience ▴ 40
It looks like the following: system(paste0("mafft --anysymbol --maxiterate 1000 Alignment_output/",GENE,".fa > ",GENE,".mafft.fa")) GE…
Comment: How to perform multiple alignment using MAFFT? by anikcropscience ▴ 40
Yes, I am using the following loop first in R to process all the files. This is the code that I am running first: blastn.filelist <- s…
Comment: Bioinformatics startup market analysis by grant.hovhannisyan ★ 2.1k
agreed, especially if no private information (names, clinical status, etc) is needed, this information should be freely accessible.
Comment: question when using topgo by Kevin Blighe 72k
^^ this
Answer: question when using topgo by seidel 7.6k
The GenTable() function has a parameter called *numChar* that controls this: "the GO term definition will be truncated such that only the f…
Comment: why my volcano plot looks strange? by cpad0112 15k
is it `log10p` or `-log10p` on y-axis?
Answer: How to get GO terms to specific to perticular biological process by geneticatt ▴ 120
See the 'is_a' field in the go.obo file. If you're looking for all subcategories of GO:0004553 ! hydrolase activity, hydrolyzing O-glycosyl…
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