Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Limit : today
all time
today
this week
this month
this year
42 results • Page
1 of 1
Sort: replies
Rank
Views
Votes
Replies
76
votes
72
replies
19k
views
19 follow
Tutorial:
Clustering of DAVID gene enrichment results from gene expression studies
enrichment
david
10 hours ago by
Kevin Blighe
87k
3
votes
13
replies
637
views
How to convert plink files to Hapmap Format
GWAS
Plink
updated 20 hours ago by
bk11
★ 2.3k • written 7 weeks ago by
Sofia
• 0
1
vote
10
replies
864
views
Troubleshooting RNA-seq data with DNA contamination
RNA-seq
DESeq2
DNA-contamination
17 hours ago by
DKA
▴ 40
1
vote
8
replies
705
views
Adding CB tag to bam file
samtools
bam
updated 4 hours ago by
Pierre Lindenbaum
161k • written 6 days ago by
Maria
• 0
3
votes
8
replies
427
views
PCA plot (Suggestions Needed)
DESeq2
PCAplot
updated 7 hours ago by
swbarnes2
14k • written 1 day ago by
Aaliya
▴ 10
4
votes
7
replies
352
views
To get p-values for the TPM
P-value
TPM
RSEM
updated 4 hours ago by
dsull
★ 5.8k • written 1 day ago by
VITALA
• 0
0
votes
5
replies
209
views
Is it possible to get a list of representative genomes from a past RefSeq release?
representative
ncbi
asembly
refseq
updated 22 hours ago by
GenoMax
141k • written 22 hours ago by
Bertalan_Takacs
▴ 90
0
votes
4
replies
203
views
different FeatureCounts output for the same data
fpkm
Counts
Rsubread
rna-seq
4 hours ago by
sehriban.buyukkilic
▴ 10
2
votes
4
replies
230
views
How to trim transcripts using information from NCBI contamination screen report
RNAseq
assembly
transcriptome
contamination
updated 19 hours ago by
GenoMax
141k • written 1 day ago by
Lada
▴ 30
2
votes
4
replies
2.3k
views
How could I generate a gi_taxid_nucl.dmp file similar to the one previously hosted by NCBI?
ncbi
metagenomics
centrifuge
gi_taxid_nucl.dmp
taxonomy
updated 8 hours ago by
ZhangYuanfeng
• 0 • written 2.4 years ago by
Frazier Baker
• 0
0
votes
4
replies
2.6k
views
Lositan freezing when generating selection table
LOSITAN
updated 10 hours ago by
evawillms183
• 0 • written 8.3 years ago by
andrepleao
• 0
2
votes
4
replies
156
views
Fetch table from clinvar database according to a list of rsid
clinvar
fetching
data
python
perl
3 hours ago by
ashaneev07
▴ 20
2
votes
3
replies
102
views
Figures are disappeared from html report of SnpEff
HTML
SnpEff
updated 1 hour ago by
Pierre Lindenbaum
161k • written 5 hours ago by
analyst
▴ 30
0
votes
3
replies
247
views
Heatmap and rna-seq
RNA-Seq
Heatmap
and
updated 10 hours ago by
Kevin Blighe
87k • written 2 days ago by
qudrat.nii
▴ 10
14
votes
2
replies
7.0k
views
Trouble with Pilon installation
polishing
pilon
installation
updated 14 hours ago by
Lissa Cruz Saavedra
• 0 • written 7.3 years ago by
Rox
★ 1.4k
0
votes
2
replies
96
views
Highest variable features in single cell data
cell
single
2 hours ago by
Kazo
• 0
0
votes
2
replies
756
views
AGeNT LocatIt
AGeNT
LocatIt
WES
UMI
duplicates
updated 20 hours ago by
barslmn
★ 2.1k • written 2.8 years ago by
jhy
▴ 10
0
votes
2
replies
216
views
How to calculate identity percentage between proteins contained in a FASTA file?
protein
FASTA
alignment
updated 17 hours ago by
Ram
43k • written 1 day ago by
v.berriosfarias
▴ 140
0
votes
2
replies
149
views
Creating Synthetic Sequences for a ML Model
DNA
ML
updated 14 hours ago by
Mensur Dlakic
★ 27k • written 18 hours ago by
biochugs
• 0
0
votes
2
replies
571
views
Why cd-hit-est not work when sequence identity threshold<0.95?
genome
cluster
sequence
updated 10 hours ago by
Dateline
• 0 • written 21 months ago by
JZX
• 0
1
vote
2
replies
161
views
alignment result
RNA-seq
samtools
hisat2
7 hours ago by
ahmad.sajad4541
• 0
0
votes
1
reply
39
views
Why gatk VariantAnnotator required bam and coverage files
gatk
VariantAnnotator
updated 1 hour ago by
Pierre Lindenbaum
161k • written 2 hours ago by
QX
• 0
0
votes
1
reply
111
views
GEMMA GWAS how to specify factor or numerical for covariates
covariate
GEMMA
GWAS
updated 21 hours ago by
Sofia
• 0 • written 1 day ago by
mawigoj318
• 0
0
votes
1
reply
62
views
why renaming Idents in Seurat object doesn't work?
Seurat
RenameIdents
R
2 hours ago by
Assa Yeroslaviz
★ 1.8k
0
votes
1
reply
122
views
Network Alignment
plugin
Cytoscape
CytoMCS
updated 8 hours ago by
Scooter
▴ 280 • written 1 day ago by
Akash D
▴ 40
2
votes
1
reply
103
views
Finding orthologs between genome error
OMA
OMAbrowser
updated 3 hours ago by
Adrian Altenhoff
★ 1.1k • written 19 hours ago by
hemantcnaik
• 0
0
votes
1
reply
124
views
Annovar using R package
Annovar
gnomAD
R
updated 14 hours ago by
Pierre Lindenbaum
161k • written 16 hours ago by
DKA
▴ 40
0
votes
1
reply
89
views
Hide positions in alignment with 99% "–" characters to ignore single sequence insertions?
alignment
gaps
updated 5 hours ago by
b.contreras.moreira
▴ 170 • written 6 hours ago by
Broccoli
• 0
0
votes
0
replies
12
views
Calling SE and TE using ROSE
Calling
SE
43 minutes ago by
Manhezz
• 0
0
votes
0
replies
76
views
News:
8th Berlin Summer School in NGS Data Analysis - Apply Now
variantcalling
DNAseq
illumina
RNAseq
transcriptomics
22 hours ago by
David Langenberger
11k
0
votes
0
replies
94
views
One error problem occurred caused by data type during using GDCprepare to handle BRCA data
TCGA
GDCprepare
updated 17 hours ago by
Ram
43k • written 22 hours ago by
glaciya2018
• 0
0
votes
0
replies
86
views
Alternative splicing analysis using SUPPA tool - how to normalise counts?
rna-seq
single-cell
suppa
alternative-splicing
updated 17 hours ago by
Ram
43k • written 1 day ago by
newuser2024
• 0
0
votes
0
replies
81
views
News:
hands-on introduction to generalized linear models (GLMs) using R
Generalized-Linear-Models
GLM
R
updated 17 hours ago by
Ram
43k • written 1 day ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
77
views
Is result interpretation of the modelHomotypic function of the DoubletFinder correct?
doublet
DoubletFinder
Seurat
modelHomotypic
updated 17 hours ago by
Ram
43k • written 1 day ago by
Jeyong
• 0
0
votes
0
replies
68
views
Can you give me an example of a small globular protein (PDB) that has disordered alpha-carbons?
protein
pdb
alpha-carbon
12 hours ago by
4fzcgueyp5
• 0
0
votes
0
replies
57
views
Tutorial:
how to combine multiple RNAseq count files into a single dataframe in R and unix
Unix
RNAseq
R
9 hours ago by
Ming Tommy Tang
★ 3.9k
0
votes
0
replies
64
views
PCA plot
DESeq2
PCAplot
9 hours ago by
Aaliya
▴ 10
0
votes
0
replies
33
views
Why not use iBAQ for calculating differential abundance of proteins?
protein
maxquant
3 hours ago by
Aspire
▴ 300
0
votes
0
replies
20
views
BLAST using both nucleotides and taxonomic local databases
blast
ncbi
taxid
taxonomy
1 hour ago by
Begonia_pavonina
▴ 150
0
votes
0
replies
157
views
roary not working with pgap output gff files with fasta sequence but works with prokka's gff outputs
pangenome
PGAP
NCBI
roary
Prokka
22 hours ago by
pramach1
▴ 40
42 results • Page
1 of 1
Recent Votes
discoSnp - reference-free finding of isolated SNPs from non assembled reads
Comment: Figures are disappeared from html report of SnpEff
Answer: Figures are disappeared from html report of SnpEff
Comment: How to trim transcripts using information from NCBI contamination screen report
Filtering rRNA contamination (indicated by GC content plots) from RNA-seq data
Filtering rRNA contamination (indicated by GC content plots) from RNA-seq data
A: What is the VEP Impact column?
Recent Locations •
All
moon,
just now
United Kingdom,
5 minutes ago
Stony Brook University, NY,
6 minutes ago
Germany,
8 minutes ago
Ramat Gan,
8 minutes ago
France/Nantes/Institut du Thorax - INSERM UMR1087,
9 minutes ago
France,
9 minutes ago
Recent Awards •
All
Popular Question
to
maxime.policarpo
▴ 200
Popular Question
to
Hamtaro
▴ 50
Popular Question
to
Nicolas Rosewick
11k
Popular Question
to
Assa Yeroslaviz
★ 1.8k
Popular Question
to
Keem Uarren Eiryll
• 0
Centurion
to
analyst
▴ 30
Popular Question
to
anasjamshed
▴ 120
Recent Replies
Comment: Is it possible to get a list of representative genomes from a past RefSeq releas
by
GenoMax
141k
At this point you should email NCBI help desk and ask them this question. If you get an answer then please post it back in this thread.
Comment: Figures are disappeared from html report of SnpEff
by
Pierre Lindenbaum
161k
the javascript in your html is deprecated or your firefox is just tool old.
Comment: Why gatk VariantAnnotator required bam and coverage files
by
Pierre Lindenbaum
161k
> I would like to ask why they may require the bam file for this function? hum.. if you want to add the coverage, where do you think gatk …
Comment: Figures are disappeared from html report of SnpEff
by
analyst
▴ 30
By following above approach I got this ![enter image description here][1] [1]: /media/images/b47490eb-d4c4-4f39-a7b2-f5b7b6b8
Comment: Highest variable features in single cell data
by
Kazo
• 0
I apologize for the confusion. What I meant to say is that, for example, the Trbv17 gene appears among the variable genes. However, when I …
Answer: why renaming Idents in Seurat object doesn't work?
by
Assa Yeroslaviz
★ 1.8k
I manage to find a workwround, but I don't understand what I did wrong here. my solution was to extract the cluster column as vector and…
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…
Traffic: 3803 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6