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402 results • Page
4 of 9
Sort: replies
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Views
Votes
Replies
0
votes
3
replies
2.4k
views
Error With Fastx_Clipper Tool To Remove Adapter.
fastq
fastx_clipper
updated 4 days ago by
Ram
38k • written 9.0 years ago by
M K
▴ 600
0
votes
3
replies
208
views
using CITE-seq data to cluster single cells
clustering
cite-seq
k-means
10x
updated 2 days ago by
ATpoint
71k • written 2 days ago by
chi.delta
▴ 40
1
vote
3
replies
198
views
merge vcf.gz file
vcf.gz
bcftools
2 days ago by
Mali
• 0
2
votes
3
replies
253
views
ORA analysis (over-representation analysis) : different package different padjusted and qvalue
r
p-value
ORA
q-value
1 day ago by
camillab.
▴ 130
1
vote
3
replies
455
views
Post-Imputation QC Problem
Imputation
2 days ago by
Jesse
• 0
1
vote
3
replies
902
views
Information like Genome size, gene count, chromosomes numbers, contigs and scaffolds etc using a list of plant species
Genome
updated 4 days ago by
Ram
38k • written 15 months ago by
Nelo
• 0
1
vote
3
replies
485
views
Using Copy Number Alterations detected in other studies for the same tumor cell line
genomes
cancer
CNV
variants
CNA
updated 2 days ago by
lethalfang
▴ 100 • written 4 months ago by
ashenflower
▴ 20
1
vote
3
replies
1.5k
views
How to get aligned protein data from DNA sequences.
protein
alignment
DNA
updated 14 hours ago by
Ram
38k • written 7.4 years ago by
samar.bt
• 0
5
votes
3
replies
435
views
What's the correct way to map to hg38 with alternative contigs?
NGS
bwa
5 days ago by
Belanov
▴ 10
2
votes
3
replies
264
views
How to get gene from PSIBLAST resuts
blast
homologous
psiblast
updated 3 days ago by
lieven.sterck
14k • written 8 days ago by
Tom
• 0
5
votes
3
replies
265
views
Read lengths greater than insert length
NGS
updated 6 days ago by
GenoMax
127k • written 6 days ago by
shpak.max
▴ 30
1
vote
3
replies
185
views
Convert .bam file from version 1.6 to 1.4
bam
samtools
updated 1 day ago by
Istvan Albert
97k • written 2 days ago by
Abhi
• 0
3
votes
3
replies
241
views
Editing fasta headers
fasta
updated 3 days ago by
Ram
38k • written 4 days ago by
Zoe
• 0
5
votes
2
replies
226
views
Somatic truth set
benchmarking
Somatic
updated 2 days ago by
lethalfang
▴ 100 • written 5 days ago by
samuel
▴ 220
0
votes
2
replies
1.7k
views
How do you find similar gene expression pattern to your GOI?
mRNA
RNA-Seq
expression-profile
updated 2 days ago by
Ram
38k • written 5.3 years ago by
Hushus
▴ 20
1
vote
2
replies
167
views
ChIPseeker Warning Message
ChIPseeker
1 day ago by
Jen
▴ 40
0
votes
2
replies
337
views
Understanding multifactor designs and control variables in DESeq2
RNA-seq
DESeq2
3 days ago by
kldsajf;ldsj;l
• 0
3
votes
2
replies
232
views
BigWig format (Cut&Run)
BigWig
1 day ago by
Usama
• 0
2
votes
2
replies
288
views
Variant caller reports a homozygous variant genotype, but more reads are associated with reference
bcftools
variants
2 days ago by
rebeliscu
▴ 50
0
votes
2
replies
203
views
boxplot issue
DESeq2
Boxplot
updated 2 days ago by
ATpoint
71k • written 2 days ago by
kalyani
• 0
0
votes
2
replies
956
views
Jellyfish histo produces a blank file
genome
jellyfish
updated 4 days ago by
Ram
38k • written 3.1 years ago by
mln.mrt
• 0
2
votes
2
replies
2.2k
views
In Perl, Method For Extracting Fileheaders From Affy Cel File.
perl
affymetrix
updated 4 days ago by
Ram
38k • written 11.9 years ago by
Blunders
★ 1.1k
0
votes
2
replies
257
views
Variant Calling with Multiple Individuals in Freebayes
freebayes
variant-calling
updated 4 days ago by
size_t
▴ 60 • written 5 days ago by
Laurence
• 0
2
votes
2
replies
2.9k
views
Create Bed File With 3 Tab Delimited Columns Using Matlab
bed
updated 4 days ago by
Ram
38k • written 10.8 years ago by
wdaali99
▴ 10
1
vote
2
replies
168
views
Analysing the Effect of a Drug on the Morphological Changes of a Cell Type
drug-effect
statistical-analysis
2 days ago by
E-HR
• 0
0
votes
2
replies
285
views
LDSC correlation calculate confidence intervals
correlation
intervals
confidence
genetic
LDSC
12 hours ago by
YL
▴ 10
1
vote
2
replies
2.6k
views
Why FPKM value of gene expression profiles are very close to zero?
next-gen
RNA-Seq
updated 1 day ago by
Ram
38k • written 7.5 years ago by
jack
▴ 960
2
votes
2
replies
1.4k
views
how are new genes idenitified from analysing genomic data?
next-gen-sequencing
updated 1 day ago by
Ram
38k • written 7.5 years ago by
mwanerhi erfgtr
▴ 30
5
votes
2
replies
941
views
Forum:
This website doesn't email me when one of my threads gets a response anymore
meta
biostars
updated 1 day ago by
Ram
38k • written 7.5 years ago by
devenvyas
▴ 720
2
votes
2
replies
1.0k
views
Forum:
Tag autocompletion doesn't show all tags
meta
biostars
updated 18 hours ago by
Ram
38k • written 7.4 years ago by
Michael D
52k
0
votes
2
replies
1.6k
views
Error when changing the database for minfi dropLociWithSnps
SNP
minfi
methylationEPIC
illumina
methylation
updated 3 days ago by
Satu
• 0 • written 5.7 years ago by
Ellen O
▴ 20
2
votes
2
replies
138
views
How to remove duplicate reads after ONT basecalling from fastq.gz files
fastq
14 hours ago by
Darrenjdd
• 0
14
votes
2
replies
6.1k
views
Tutorial:
ChIP-seq analysis tutorial
ChIP-Seq
updated 1 day ago by
Ram
38k • written 7.6 years ago by
Ming Tommy Tang
★ 2.9k
3
votes
2
replies
2.7k
views
Tab Delimited Files Comparison
bash
updated 4 days ago by
Ram
38k • written 10.0 years ago by
Raghav
▴ 100
2
votes
2
replies
3.9k
views
How Can I Convert A Bed File Into A Tab File With Paired End Reads On The Same Row?
bed
updated 4 days ago by
Ram
38k • written 11.2 years ago by
Luke
▴ 240
6
votes
2
replies
9.7k
views
Tophat Junctions.Bed File
tophat
updated 4 days ago by
Ram
38k • written 10.9 years ago by
Varun Gupta
★ 1.2k
7
votes
2
replies
1.3k
views
Forum:
Merging Two Biostars Profiles
meta
biostars
updated 2 days ago by
Ram
38k • written 7.1 years ago by
Naren
▴ 960
0
votes
2
replies
3.4k
views
How To Set Rapd Data For Analysis In Excel?
RAPD
updated 4 days ago by
Ram
38k • written 10.1 years ago by
apameini
• 0
0
votes
2
replies
286
views
Installing rlang version 1.1.0
ExomeDepth
rlang
R
4 days ago by
Medha
• 0
4
votes
2
replies
2.8k
views
News:
NCBI NOW (Next generation sequencing Online Workshop) October 13 - 23 , 2015
NCBI
DNA-Seq
NGS
RNA-Seq
updated 1 day ago by
Ram
38k • written 7.5 years ago by
rtliu
★ 2.2k
0
votes
2
replies
421
views
Calculation method of RMSMappingQuality
NGS
bam
samtools
vcf
6 days ago by
zhangfish
▴ 50
0
votes
2
replies
2.4k
views
can I perform gene ontology using microarray gene expression data?
microarray
genome
gene-ontology
updated 1 day ago by
Ram
38k • written 7.6 years ago by
fzrh
▴ 10
1
vote
2
replies
265
views
How to get fraction of unspliced reads for specific gene from scRNAseq Cell Ranger output
scRNA-seq
python
CellRanger
updated 6 days ago by
Rob
5.9k • written 7 days ago by
codezero
• 0
9
votes
2
replies
3.0k
views
Good Methodology To Name Rna-Seq Files
rna-seq
updated 4 days ago by
Ram
38k • written 9.7 years ago by
Nicolas Rosewick
10k
8
votes
2
replies
312
views
What is the NCBI's definition of an "atypical genome"?
NCBI
genome
annotation
updated 2 days ago by
MirianT_NCBI
▴ 530 • written 2 days ago by
acvill
▴ 290
1
vote
2
replies
476
views
How we could calculate the sample size for ATAC seq and single cell RNA seq, respectively?
single-cell
ATAC-seq
updated 4 days ago by
Ram
38k • written 4 months ago by
skywalker21th
• 0
0
votes
2
replies
1.6k
views
Forum:
Data Vizualization or Pathway Analysis
next-gen
RNA-Seq
updated 16 hours ago by
Ram
38k • written 7.4 years ago by
quevedo.marisa
• 0
2
votes
2
replies
226
views
How to get a list of genes information for a pathway?
pathway
updated 5 days ago by
ATpoint
71k • written 5 days ago by
WUSCHEL
▴ 720
0
votes
2
replies
3.4k
views
Interproscan nucleotide sequence scanning
software-error
sequence
updated 16 hours ago by
Ram
38k • written 7.4 years ago by
waqasnayab
▴ 230
3
votes
2
replies
233
views
How to make cut off linein cluster,
dendogram
Cutoff
R
updated 5 days ago by
GenoMax
127k • written 6 days ago by
Info.shi
▴ 30
402 results • Page
4 of 9
Recent Votes
Comment: My keys are all ENSEMBL, but R says they are not valid keys for ENSEMBL
Answer: How to remove duplicate reads after ONT basecalling from fastq.gz files
Talk from Aaron Lun on Orchestrating Single-Cell Analysis With Bioconductor
SSPACE for scaffolding
Answer: Snakemake workflow for trimmomatic
Answer: How to remove duplicate reads after ONT basecalling from fastq.gz files
A: Why Chip-seq data cross correlation plot has fragment_lenth cross correlation p
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Comment: TCGA-BRCA tissue and RNAseq problem
by
pinheirofabiano
▴ 10
Go to https://portal.gdc.cancer.gov > Exploration > select TCGA and the cancer type you want > select case ID to download the files and hav…
Answer: Snakemake workflow for trimmomatic
by
antoine.fauchois92
• 0
Thank you very much for your reply ! It's working now !
Comment: Dependent p values
by
Eliza
▴ 20
@lchart I'm sorry for asking another of questions but I'm new to this field , can you please explain a little more how to use SKAT , saige…
Comment: How to deal with the probe id mapping to multiple gene ids?
by
dare_devil
★ 1.7k
similar question [here][1], [here][2] and [here][3] [1]: https://support.bioconductor.org/p/54838/ [2]: https://support.bioconductor.…
Comment: How to deal with the probe id mapping to multiple gene ids?
by
dare_devil
★ 1.7k
@genomax I have used the same platform file only. If you look at probe id and their corresponding `Gene Symbol` or `ENTREZ_GENE_ID` you can…
Comment: How to deal with the probe id mapping to multiple gene ids?
by
GenoMax
127k
Where are you seeing this? [Platform file for this array][1] on GEO has these names uniquely assigned. [1]: https://www.ncbi.nlm.nih.go…
Comment: My keys are all ENSEMBL, but R says they are not valid keys for ENSEMBL
by
rpolicastro
11k
`Org.Mm.eg.db` is the mouse organism database, but your ENSEMBL IDs are for human genes. Mouse ensembl ids start with `ENSMUSG`. You proba…
Comment: Snakemake doesn't recognize output files even though they are created
by
DdogBoss
• 0
Yes, it completed the dry run. What other information do you need?
Comment: LDSC correlation calculate confidence intervals
by
YL
▴ 10
Based on my personal thought, I think the se from LDSC output probably needs to be transferred using Delta method based on Fisher transform…
Comment: LDSC correlation calculate confidence intervals
by
YL
▴ 10
Hi, Are you able to find an answer for this? I have the exact question! YL
Answer: Gene duplicate
by
ATpoint
71k
Use use ensembID_geneName as gene identifier to avoid that. These duplicate names exist as genes so removing them is somewhat not really da…
Comment: Gene duplicate
by
Ram
38k
> some Ensembl IDs that are the same Please show us some examples.
Comment: R package for functional enrichment and depletion analysis
by
rpolicastro
11k
What you're describing is a simulation of the hypergeometric test, so if you want an exact solution you could use the function `fora` from …
Comment: How to remove duplicate reads after ONT basecalling from fastq.gz files
by
Darrenjdd
• 0
Perfect! Thank you!
Comment: Why Chip-seq data cross correlation plot has fragment_lenth cross correlation p
by
Daniel
• 0
Hi, I am wondering if you ever got an answer for this question. Also, I am curious why it is true that "All the reads coming from one end…
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