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1,000 results • Page 4 of 20
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9
votes
5
replies
3.9k
views
What's the interpretation behind Pathway enrichment analysis
networks pathway enrichment analysis gene
updated 6.6 years ago by 20 • written 6.8 years ago by ▴ 260
9
votes
16
replies
1.9k
views
feature extraction from SNPs in R
R gene sequence SNP
5.5 years ago by bioinfo456 ▴ 150
9
votes
19
replies
2.3k
views
There are any way to use a script for feed emboss with fasta sequence?
sequence
4.3 years ago by schlogl ▴ 160
9
votes
7
replies
5.4k
views
How to combine a different sources of pathway database (KEGG, BioCarta) for Pathway analysis.
Pathway enrichment analysis GWAS pathway analysis
7.8 years ago by kmsh410 ▴ 40
9
votes
3
replies
7.2k
views
Statistical Distributions In Rna-Seq Data Analysis
statistics rna
updated 5.1 years ago by 20 • written 12.1 years ago by ▴ 380
9
votes
4
replies
2.1k
views
[Code] Converte fasta/fa files to fastq
perl fastq sed fasta
updated 20 months ago by 43k • written 8.4 years ago by ★ 9.4k
9
votes
10
replies
2.2k
views
[solved] Convert fold changes of multiple transcripts of a given gene to a single value characterising this gene
RNA-Seq
7.6 years ago by biostart ▴ 370
9
votes
7
replies
5.6k
views
fisher test with multiple samples
statistics
updated 2.4 years ago by 43k • written 9.8 years ago by ▴ 220
9
votes
13
replies
2.4k
views
single tumor vs multiple normal sample differential gene expression (RNA-Seq ) analysis using DESeq2
RNA-Seq DESeq2
updated 3.0 years ago by 43k • written 3.0 years ago by ▴ 30
9
votes
1
reply
6.1k
views
Why does MACS2 report multiple records for the same peak region?
ChIP-Seq macs macs2
updated 20 months ago by 43k • written 8.5 years ago by ★ 3.4k
9
votes
14
replies
4.3k
views
Explanation on Paired end single index for RNA seq
RNA-Seq
updated 2.1 years ago by 43k • written 9.3 years ago by ▴ 70
9
votes
2
replies
579
views
Answer needed urgently
Deep
updated 19 months ago by ★ 27k • written 19 months ago by • 0
9
votes
17
replies
2.2k
views
Creating intergenic bam file
R genome intergenic alignment
7.7 years ago by erincyurtman • 0
9
votes
6
replies
3.1k
views
Bug in JellyFish and DSK k-mer counting tool?
dsk jellyfish k-mer
7.4 years ago by scchess ▴ 640
9
votes
6
replies
1.9k
views
Question about featureCounts
RNA-Seq featurecounts
updated 2.7 years ago by • 0 • written 4.5 years ago by ▴ 30
9
votes
13
replies
15k
views
Sort bam file by coordinates using samtools
next-gen-sequencing gene rna-seq
updated 10 months ago by 43k • written 5.6 years ago by ▴ 30
9
votes
13
replies
2.8k
views
qRT-PCR data analysis steps and workflow
qRT-PCR Reference genes Normalization DeltaCt FC
5.2 years ago by mohammedtoufiq91 ▴ 250
9
votes
7
replies
1.9k
views
Is the sequence quality good enough?
WGS HISEQ4000 QC
5.9 years ago by BioinfGuru ★ 1.7k
9
votes
11
replies
4.4k
views
please someone help me with running mirdeep2
software error mirdeep2 perl
7.6 years ago by zizigolu ★ 4.3k
9
votes
14
replies
3.1k
views
vcf to xls wrong columns
vcf
7.7 years ago by cristina_sabiers ▴ 110
9
votes
12
replies
7.3k
views
How to align reads on reference using python?
genome sequence gene sequencing
updated 5.4 years ago by 47k • written 5.4 years ago by ▴ 10
9
votes
9
replies
4.7k
views
ATAC-seq TSS profile plot interpretation
ATAC-seq TSS V-plot
4.4 years ago by nanoide ▴ 120
9
votes
12
replies
1.5k
views
Copy number variations analysis
R CNV
updated 4.4 years ago by 11k • written 4.4 years ago by ▴ 70
9
votes
7
replies
1.3k
views
Reference genome location
reference positions FASTA alignment genome
updated 15 months ago by ★ 2.1k • written 16 months ago by • 0
9
votes
7
replies
2.4k
views
Merging BWT indices for BWA
BWA BWT read aligner merge
5.5 years ago by rgc255 ▴ 60
8
votes
30
replies
5.1k
views
Per Base Sequence Content
sequencing fastqc genome sequence
updated 4.1 years ago by ▴ 560 • written 4.1 years ago by ▴ 20
8
votes
11
replies
4.1k
views
STAR can not detect this chimeric read
RNA-Seq fusion STAR
updated 7.5 years ago by 20 • written 7.7 years ago by 10k
8
votes
4
replies
3.2k
views
How to use machine learning in Fastq/Fasta data?
machine learning fasta fastq sequencing
6.9 years ago by inkprs ▴ 70
8
votes
6
replies
911
views
How to create a Venn Diagram for overlapping SVs from a merged VCF
truvari structural-variants r vcf venn-diagram
5 months ago by Matteo Ungaro ▴ 100
8
votes
12
replies
4.2k
views
Use BLAST Command Line Applications to run a folder of many sequences against a database
BLAST
updated 13 months ago by 43k • written 2.7 years ago by ▴ 30
8
votes
6
replies
2.3k
views
Using Bandage to finish ambiguous long-read assembly?
Assembly Bandage long reads Unicycler
updated 5.2 years ago by 20 • written 5.4 years ago by ★ 1.9k
8
votes
11
replies
3.6k
views
Semantic Similarity selection in REVIGO: which is better? many clusters or few?
go revigo gene ontology
6.4 years ago by Farbod ★ 3.4k
8
votes
17
replies
4.0k
views
Getting nan value in vcftool relatedness command?
vcftools relatedness
6.2 years ago by Sharon ▴ 600
8
votes
9
replies
1.5k
views
6 follow
Featurecount is 0 while TPM is 6289.54
TPM Count Feature
2.4 years ago by zhangmeng21 ▴ 10
8
votes
20
replies
2.5k
views
Converting runpsipred Script to Work on Windows OS
psipred windows
updated 23 months ago by 43k • written 5.7 years ago by ▴ 270
8
votes
14
replies
6.0k
views
Error in BWA-MEM running in linux
RNA-Seq BWA-MEM alignment
updated 5.9 years ago by 141k • written 5.9 years ago by ▴ 170
8
votes
5
replies
813
views
Frustrated with DEA results
microarray differential-expression
updated 6 months ago by ★ 5.8k • written 7 months ago by • 0
8
votes
7
replies
4.3k
views
ORF finder script
orf open reading frame bash shell sequencing
7.3 years ago by ahm3dhany ▴ 20
8
votes
9
replies
2.9k
views
6 follow
Big difference in estimated duplicate reads between forward and reverse of paired-end RNA-seq
RNA-Seq duplication fastqc
updated 22 months ago by ▴ 840 • written 4.5 years ago by ★ 2.1k
8
votes
9
replies
1.5k
views
superimpose
discovery ds visualizer
2.9 years ago by Alex ▴ 20
8
votes
14
replies
2.3k
views
6 follow
Definition of "=" in comparing two genes
sequencing gene
updated 2.5 years ago by 43k • written 9.8 years ago by • 0
8
votes
8
replies
1.7k
views
6 follow
DESeq2 adjusted p-values of 0 when p-value > 0.05
RNA-seq DEseq2
updated 3.0 years ago by ▴ 390 • written 3.0 years ago by • 0
8
votes
7
replies
1.5k
views
Splitting the overall RNA-seq data
RNA-Seq
6.9 years ago by aeserrano ▴ 40
8
votes
7
replies
5.9k
views
Download human 3 UTR FASTA file
genome
8.2 years ago by bharata1803 ▴ 560
8
votes
4
replies
2.4k
views
Global Sequence Alignment
alignment
11.0 years ago by behrang • 0
8
votes
5
replies
1.0k
views
Why could we infer a physical time scale (e.g. a billion year) from a phylogenetic analysis?
phylogeny phylogenetic tree
4.5 years ago by johnnytam100 ▴ 110
8
votes
5
replies
2.0k
views
BLASTp command line : filtering results by a minimum % of identity and % coverage
BLASTp
updated 7 months ago by 43k • written 2.6 years ago by ▴ 160
8
votes
11
replies
2.7k
views
directionality of RRBS
directional non-directional RRBS
updated 2.7 years ago by ★ 2.9k • written 2.9 years ago by ▴ 140
8
votes
12
replies
3.4k
views
fastq file format error
fastq illumina
updated 4.9 years ago by 161k • written 4.9 years ago by ▴ 350
8
votes
20
replies
2.6k
views
Getting read depth for normal and tumour
R WGS vcf
5.1 years ago by zizigolu ★ 4.3k
1,000 results • Page 4 of 20
Recent Votes
Answer: Finding orthologs between genome error
Answer: Finding orthologs between genome error
Answer: Fetch table from clinvar database according to a list of rsid
Comment: Fetch table from clinvar database according to a list of rsid
Comment: Adding CB tag to bam file
Comment: alignment result
Comment: clustalo - align milions of short seq, memory issue
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Recent Replies
Answer: Finding orthologs between genome error by Adrian Altenhoff ★ 1.1k
Hi, thanks for letting us know. In a recent software update, we introduced a problem with the written splice information in the cached …
Comment: Fetch table from clinvar database according to a list of rsid by ashaneev07 ▴ 20
so which one should i prefer? i don't need the entire results i need the condition-Germline table only. (for eg:-from, https://www.ncbi.nlm…
Comment: To get p-values for the TPM by dsull ★ 5.8k
OK, not sure why your intention is to use RSEM p-values for, but at least tell us the commands you ran then otherwise how are we supposed t…
Comment: Fetch table from clinvar database according to a list of rsid by Pierre Lindenbaum 161k
> Don't forget to follow up on your threads. If an answer was helpful, you should upvote it; if the answer resolved your question, you shou…
Comment: different FeatureCounts output for the same data by sehriban.buyukkilic ▴ 10
Sure, I'll inquire about the version of Rsubread. I'll keep you posted if it works :) Thanks
Comment: different FeatureCounts output for the same data by sehriban.buyukkilic ▴ 10
Yeah, let me show you my featureCounts result, it looks like this. It's too low. [1]: /media/images/eb8293fe-e6ae-4b02-92e2-0ba2075b
Comment: Adding CB tag to bam file by Pierre Lindenbaum 161k
samtools addreplacerg is for read groups. This is not what OP asked.
Comment: Adding CB tag to bam file by Maria • 0
When I try ``` samtools addreplacerg -r "@CB\tID:$cell" -o $cell.bam $LINE``` the CB tag gets add to the header, but the tag in every line …
Answer: Figures are disappeared from html report of SnpEff by Pierre Lindenbaum 161k
the remote website providing the javascript or/and the images is down or you're now behind a proxy. Check the firefox console: https://fire…
Comment: Fetch table from clinvar database according to a list of rsid by Pierre Lindenbaum 161k
ah ! and your code doesn't work because clinvar ID is not a rs-ID.
Answer: Fetch table from clinvar database according to a list of rsid by Pierre Lindenbaum 161k
$ cat input.rs rs11203366 rs11203367 rs874881 rs776453694 rs80324279 rs324420 rs112766203 wget -…
Comment: Highest variable features in single cell data by ATpoint 82k
> and these cells are not even in a single cluster. What does this mean? If you run clustering on all cells then every cell is assigned t…
Comment: Is it possible to get a list of representative genomes from a past RefSeq releas by Bertalan_Takacs ▴ 90
Yes, I can tell that, but as far as I see it doesn't contain any other information about the genomes, such as if they were representative i…
Answer: Hide positions in alignment with 99% "–" characters to ignore single sequence in by b.contreras.moreira ▴ 170
You can try <https://github.com/inab/trimal>
Comment: To get p-values for the TPM by VITALA • 0
yes i want what rsem does and i did try with prior-enhanced option/pRSEM, but i think pRSEM is for chipseq data
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