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 : this week
all time
today
this week
this month
this year
79 results • Page
1 of 2
Sort: Votes
Rank
Views
Votes
Replies
15
votes
16
replies
806
views
ncbi error report log for validate fastq issue
sra-tools
updated 5 days ago by
GenoMax
135k • written 6 days ago by
1769mkc
★ 1.1k
8
votes
5
replies
357
views
Frustrated with DEA results
microarray
differential-expression
updated 4 days ago by
dsull
★ 4.8k • written 5 days ago by
jopadrosa
• 0
4
votes
6
replies
388
views
Hisat2 index and alignment question
ubuntu
rna-seq
index
hisat2
updated 6 days ago by
Istvan Albert
98k • written 9 days ago by
Athena
• 0
3
votes
3
replies
2.2k
views
WGCNA Labeled Heatmap
heatmap
wgcna
updated 6 days ago by
Ram
40k • written 2.0 years ago by
Anand
▴ 40
3
votes
15
replies
549
views
How to subset large BAM files specifically/ extract specific subsets?
bamtools
RNAseq
samtools
BAM
4 days ago by
ella
• 0
3
votes
3
replies
282
views
Clustering in single cell
seurat
single-cell
4 days ago by
Chris
▴ 200
2
votes
6
replies
257
views
Match variants from RNAseq with known databases
dbsnp
SNP
vcf
bcftools
RNA-seq
23 hours ago by
dilokef367
• 0
2
votes
13
replies
1.5k
views
RepeatMasker error when trying to generate repeat sequence distribution pie chart (all code and errors provided)
repeatmasker
updated 6 days ago by
Ram
40k • written 6 weeks ago by
epianalysis
• 0
2
votes
10
replies
2.8k
views
6 follow
Split plink files by a number of SNPs
GWAS
SNP
plink
updated 4 days ago by
Raygozak
★ 1.4k • written 5.2 years ago by
kakukeshi
▴ 80
2
votes
2
replies
1.9k
views
Plotting Allele Frequencies
variant-analysis
updated 22 hours ago by
Ram
40k • written 4.2 years ago by
kristina.mahan
▴ 160
2
votes
2
replies
286
views
bedtools intersect by position & stand not working even with common regions
bedtools
genomic
intersect
bedops
intervals
1 day ago by
Alewa
▴ 140
2
votes
7
replies
700
views
Weirdness in annotation (missing allele frequencies)
allele-frequency
gnomad
annovar
updated 1 day ago by
Ram
40k • written 11 days ago by
Can Abdullah
• 0
1
vote
2
replies
171
views
extract first and last n bp from fasta file from multiple fasta file in R
comparative-genomics
updated 21 hours ago by
Ram
40k • written 1 day ago by
praasu
▴ 40
1
vote
1
reply
212
views
Imputation server failing to see samples in VCF files
imputation
VCF
updated 3 days ago by
Ram
40k • written 3 days ago by
Ben
• 0
1
vote
4
replies
398
views
How to perform hypothesis testing on contingency tables and compare with the null distribution?
hypothesis-testing
contingency-table
3 days ago by
RK
• 0
1
vote
3
replies
281
views
differences between trajectories in conditions with Monocle3 or other tools
trajectory
scRna-seq
monocle3
single-cell
updated 3 days ago by
Amitm
★ 2.2k • written 4 days ago by
Chironex
▴ 40
1
vote
5
replies
240
views
bcftools error merging two VCFs: REF prefixes differ
bcftools
VCF
6 days ago by
Shane
• 0
1
vote
0
replies
116
views
rMATS visualisation
R
rMATS
maser
updated 18 hours ago by
Ram
40k • written 2 days ago by
Smriti
▴ 10
1
vote
3
replies
331
views
How to determine the total count for each gene in lymphotype B
scRNAseq
Seurat
5 days ago by
dalibenam64
• 0
1
vote
5
replies
295
views
CollectRnaSeqMetrics (Picard) output to convert FeatureCounts into TPM
R
Picard
CollectRnaSeqMetrics
updated 5 days ago by
Ram
40k • written 5 days ago by
camillab.
▴ 140
1
vote
3
replies
3.2k
views
rna-seq analysis with Salmon - how to Import and summarize using tximport
RNA-Seq
salmon
tximport
updated 22 hours ago by
camillab.
▴ 140 • written 4.1 years ago by
woojoy14
▴ 10
1
vote
7
replies
3.6k
views
Adjust width of annotations in pheatmap
R
heatmap
updated 1 day ago by
Kevin Blighe
86k • written 4.9 years ago by
divya.nandakumar
▴ 30
1
vote
3
replies
961
views
How to reduce Quast stats being based on "contigs of size > 100000 bp"
quast
updated 23 hours ago by
Ram
40k • written 3.1 years ago by
kristina.mahan
▴ 160
1
vote
6
replies
721
views
18S sequence not matching 18S sequence in assembly
18S
BLAST
updated 22 hours ago by
Ram
40k • written 3.2 years ago by
kristina.mahan
▴ 160
1
vote
2
replies
302
views
functional analysis
16S
metabarcoding
functionalanalysis
1 day ago by
safeassli
• 0
1
vote
3
replies
277
views
comparision of umap single cell
single-cell
4 days ago by
synat.keam
▴ 80
1
vote
1
reply
226
views
Comparing multiple RNASeq studies
RNASeq
updated 4 days ago by
Zhenyu Zhang
▴ 980 • written 4 days ago by
Luke
▴ 10
1
vote
5
replies
396
views
Complex multifactorial DE analysis with limma/edgeR based on rnaseq data
R
edgeR
limma
RNA-seq
updated 4 days ago by
LChart
3.4k • written 5 days ago by
svlachavas
▴ 780
1
vote
4
replies
251
views
How to filter vcf file by MAF using bcftools?
bcftools
vcf
updated 5 days ago by
Ram
40k • written 6 days ago by
_quantum_girl_
▴ 10
0
votes
1
reply
1.3k
views
Convert .sqn file to .gbk
organelle
updated 23 hours ago by
Ram
40k • written 2.6 years ago by
kristina.mahan
▴ 160
0
votes
0
replies
518
views
Need to fix .sqn genome annotation file prior to uploading to NCBI
sqn
NCBI
updated 22 hours ago by
Ram
40k • written 2.7 years ago by
kristina.mahan
▴ 160
0
votes
2
replies
1.1k
views
Blobtools output files
blobtools
updated 22 hours ago by
Ram
40k • written 3.0 years ago by
kristina.mahan
▴ 160
0
votes
6
replies
854
views
Illumina reads mapped back onto contigs have gaps
illumina
updated 22 hours ago by
Ram
40k • written 3.0 years ago by
kristina.mahan
▴ 160
0
votes
0
replies
209
views
comparing the intron/ intron location with the reference transcript in the orthologous transcripts
comparative-genomics
transcripts
updated 21 hours ago by
Ram
40k • written 9 months ago by
praasu
▴ 40
0
votes
0
replies
248
views
How can I identity Branch point sequence from Intron?
DNA-seq
splicing
RNA-seq
updated 21 hours ago by
Ram
40k • written 20 months ago by
praasu
▴ 40
0
votes
4
replies
181
views
counting from a single BAM file with multiple samples
cell-barcode
RNA-seq
updated 20 hours ago by
LChart
3.4k • written 21 hours ago by
dr-device
• 0
0
votes
1
reply
173
views
Pheatmap x must be numeric
deseq2
r
pheatmap
updated 19 hours ago by
Ram
40k • written 2 days ago by
Hamza
• 0
0
votes
1
reply
112
views
FEAST - Microbial Source Tracking
Source-Tracking
Microbiome
updated 18 hours ago by
Ram
40k • written 1 day ago by
avinash.dhar
• 0
0
votes
1
reply
128
views
Large fold change when analyzing expression profiling from microarray
limma
DEG
RNA
updated 18 hours ago by
Ram
40k • written 1 day ago by
Yibin
• 0
0
votes
1
reply
90
views
Bam sort merge error?
bam
linux
sam
updated 8 hours ago by
Pierre Lindenbaum
157k • written 10 hours ago by
Athena
• 0
0
votes
2
replies
250
views
QC of genetic data
PLINK
6 hours ago by
kl
▴ 10
0
votes
2
replies
148
views
How can I compute energy from a protein PDB file?
pdb
protein
updated 5 hours ago by
Matthias Zepper
4.1k • written 1 day ago by
4fzcgueyp5
• 0
0
votes
1
reply
178
views
TEtranscripts Tool in Galaxy
RNAseq
Transposable_Elements
TE_Transcripts
updated 3 hours ago by
biofalconch
★ 1.0k • written 3 days ago by
gorizwango
▴ 30
0
votes
2
replies
252
views
Issues with featureCounts
featurecounts
rna-seq
differential-expression
updated 2 hours ago by
biofalconch
★ 1.0k • written 4 days ago by
Aime
• 0
0
votes
0
replies
32
views
DMRcate design
R
Epigenetics
EPIC
DMRcate
updated 46 minutes ago by
Ram
40k • written 3 hours ago by
Bioinfonext
▴ 440
0
votes
0
replies
41
views
Detection of CNVs with copy number greater than 4 by PennCNV
copy-number
PennCNV
updated 41 minutes ago by
Ram
40k • written 6 hours ago by
yamamoto.yasuyuki.n6
• 0
0
votes
0
replies
49
views
Algorithmic Solutions for Resolving Overlapping Sequences in Sanger Sequencing of PCR Segments
Sanger
pcr
updated 40 minutes ago by
Ram
40k • written 11 hours ago by
Amior
• 0
0
votes
1
reply
165
views
Is there any way i can determine the kit used for library preparation for whole exome sequencing from fastq files?
Agilent
NGS
library-preparation
updated 20 minutes ago by
Ram
40k • written 10 hours ago by
Harinder
• 0
0
votes
0
replies
26
views
Adding means cluster from fviz_cluster on the PCA
fviz_cluster
updated 7 minutes ago by
Ram
40k • written 2 hours ago by
ayaosama2111
▴ 10
0
votes
7
replies
953
views
FACS (Fluorescence-activated cell sorting NOT cyTOF),Automating the removal of dead and duplicated cells
FACS
updated 6 days ago by
rfran010
▴ 840 • written 20 days ago by
ccbb7aab4
▴ 20
79 results • Page
1 of 2
Recent Votes
Answer: Search RCSB with a list of protein names?
Answer: Search RCSB with a list of protein names?
Comment: Split reads along the genome in my samples
Produce PCA bi-plot for 1000 Genomes Phase III - Version 2
Produce PCA bi-plot for 1000 Genomes Phase III - Version 2
A: How to select aligned reads below certain mapping Quality (from BWA)?
Answer: Using R in Conda
Recent Locations •
All
United States,
just now
France/Nantes/Institut du Thorax - INSERM UMR1087,
2 minutes ago
United Kingdom,
5 minutes ago
Germany,
5 minutes ago
Frankrike,
5 minutes ago
United States,
6 minutes ago
India,
6 minutes ago
Recent Awards •
All
Teacher
to
GenoMax
135k
Popular Question
to
hemantcnaik
• 0
Popular Question
to
nihilior
▴ 50
Popular Question
to
Bioinfonext
▴ 440
Popular Question
to
Manuel
▴ 40
Popular Question
to
bio_elle
▴ 10
Popular Question
to
bharata1803
▴ 550
Recent Replies
Comment: Get discordant read pairs from bam
by
Pierre Lindenbaum
157k
https://www.biostars.org/p/163728/
Answer: pheatmap
by
georgii.vdovin
• 0
Hi, you could maybe try releveling the factor when you define them in your coldata, because otherwise it's alphabetic: ```r colData$condit…
Comment: Issues with featureCounts
by
biofalconch
★ 1.0k
What does the summary say? (featureCounts generates a summary file with different classifications, more about it on the subread manual unde…
Comment: TEtranscripts Tool in Galaxy
by
biofalconch
★ 1.0k
Providing what you have already tried as well as the error messages you get can go a long way :). Nevertheless, here is the github repo fro…
Comment: Convert amino acid sequences into nucleotide sequences
by
Joe
21k
You will need to look at `seqkit`'s regex and other advanced matching tools in that case, since you can't use simple string matches. …
Comment: How can I compute energy from a protein PDB file?
by
Matthias Zepper
4.1k
Not at all my field of expertise, but the [AMBER package][1] is what we used in our protein bioinfo classroom exercise back in the day. I t…
Comment: Convert amino acid sequences into nucleotide sequences
by
sperezilvia
▴ 10
I have a problem. The SeqID from the nucleotide.fasta doesn't match with the SeqID from the protein.fasta because in the protein.fasta the …
Comment: How to plot coverage and depth statistics of a bam file
by
William
▴ 20
Hi Jinli, It seems to be related to the pandas version you are using. Which version are you using? Try to install the latest version and s…
Comment: QC of genetic data
by
kl
▴ 10
Thanks for the advice. What about the third column (GS in plink). I am used to it being 0? And last question, what does it mean when there …
Comment: Is there any way i can determine the kit used for library preparation for whole
by
ATpoint
77k
You can align the data and then determine coverage over the exons, then checking which kit (based on what they promise to capture) it fits …
Comment: Installation: Tax4Fun2 package are not found and github repository is not mainta
by
zx8754
11k
https://github.com/ZihaoShu/Tax4Fun2 has tar file `Tax4Fun2_1.1.5.tar.gz`, download and [install from source](https://stackoverflow.com/q/…
Answer: Bioinformatics short paper journal resource [software/webapps/database]
by
Gennady Khvorykh
▴ 100
[NAR Genomics and Bioinformatics][1] also has Application Notes section for short (up to 3000 words) articles devoted to program, workflow,…
Comment: Bam sort merge error?
by
Pierre Lindenbaum
157k
it's just a log about : https://en.wikipedia.org/wiki/External_sorting and about https://en.wikipedia.org/wiki/Merge_sort
Answer: I need help with univariate logistic regression in a set of microarray data
by
DareDevil
★ 3.3k
LR can be sensitive to the scale of your predictor variable. Since your gene expression values are all within a small range (between 8 and …
Comment: identify DEGs across all conditions and per specific conditions
by
Yogi
▴ 40
Glad to hear!
Traffic: 3145 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