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32 results • Page
1 of 1
Sort: Votes
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Views
Votes
Replies
2
votes
6
replies
251
views
Match variants from RNAseq with known databases
dbsnp
SNP
vcf
bcftools
RNA-seq
21 hours ago by
dilokef367
• 0
2
votes
7
replies
698
views
Weirdness in annotation (missing allele frequencies)
allele-frequency
gnomad
annovar
updated 23 hours ago by
Ram
40k • written 10 days ago by
Can Abdullah
• 0
2
votes
2
replies
1.9k
views
Plotting Allele Frequencies
variant-analysis
updated 20 hours ago by
Ram
40k • written 4.2 years ago by
kristina.mahan
▴ 160
1
vote
2
replies
169
views
extract first and last n bp from fasta file from multiple fasta file in R
comparative-genomics
updated 18 hours ago by
Ram
40k • written 1 day ago by
praasu
▴ 40
1
vote
3
replies
961
views
How to reduce Quast stats being based on "contigs of size > 100000 bp"
quast
updated 20 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 20 hours ago by
Ram
40k • written 3.2 years ago by
kristina.mahan
▴ 160
1
vote
3
replies
3.2k
views
rna-seq analysis with Salmon - how to Import and summarize using tximport
RNA-Seq
salmon
tximport
updated 20 hours ago by
camillab.
▴ 140 • written 4.1 years ago by
woojoy14
▴ 10
1
vote
0
replies
113
views
rMATS visualisation
R
rMATS
maser
updated 16 hours ago by
Ram
40k • written 1 day ago by
Smriti
▴ 10
0
votes
1
reply
163
views
TEtranscripts Tool in Galaxy
RNAseq
Transposable_Elements
TE_Transcripts
updated 30 minutes ago by
biofalconch
★ 1.0k • written 3 days ago by
gorizwango
▴ 30
0
votes
2
replies
1.1k
views
Blobtools output files
blobtools
updated 20 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 20 hours ago by
Ram
40k • written 3.0 years ago by
kristina.mahan
▴ 160
0
votes
0
replies
10
views
DMRcate design
statistics
Epigenetics
R
array
EPIC
36 minutes ago by
Bioinfonext
▴ 440
0
votes
0
replies
85
views
Problem with RNAseq MarkDuplicates(Picard)
MarkDuplicates
GATK
SNP
RNA-seq
updated 22 hours ago by
Ram
40k • written 22 hours ago by
Grace
• 0
0
votes
2
replies
238
views
Issues with featureCounts
featurecounts
rna-seq
differential-expression
updated 20 minutes ago by
biofalconch
★ 1.0k • written 4 days ago by
Aime
• 0
0
votes
0
replies
209
views
comparing the intron/ intron location with the reference transcript in the orthologous transcripts
comparative-genomics
transcripts
updated 18 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 18 hours ago by
Ram
40k • written 19 months ago by
praasu
▴ 40
0
votes
0
replies
87
views
Problems encountered during the survival analysis with TCGA data
R
survival-analysis
TCGA
updated 22 hours ago by
Ram
40k • written 1 day ago by
applepie
• 0
0
votes
4
replies
179
views
counting from a single BAM file with multiple samples
cell-barcode
RNA-seq
updated 18 hours ago by
LChart
3.4k • written 18 hours ago by
dr-device
• 0
0
votes
1
reply
171
views
Pheatmap x must be numeric
deseq2
r
pheatmap
updated 16 hours ago by
Ram
40k • written 2 days ago by
Hamza
• 0
0
votes
1
reply
110
views
FEAST - Microbial Source Tracking
Source-Tracking
Microbiome
updated 16 hours ago by
Ram
40k • written 1 day ago by
avinash.dhar
• 0
0
votes
1
reply
126
views
Large fold change when analyzing expression profiling from microarray
limma
DEG
RNA
updated 16 hours ago by
Ram
40k • written 1 day ago by
Yibin
• 0
0
votes
0
replies
2
views
Adding means cluster from fvis_cluster on the PCA
fviz_cluster
just now by
ayaosama2111
▴ 10
0
votes
0
replies
45
views
Algorithmic Solutions for Resolving Overlapping Sequences in Sanger Sequencing of PCR Segments
pcr
sequencing
Sanger
analysis
sequence
8 hours ago by
Amior
• 0
0
votes
1
reply
85
views
Bam sort merge error?
bam
linux
sam
updated 5 hours ago by
Pierre Lindenbaum
157k • written 8 hours ago by
Athena
• 0
0
votes
1
reply
142
views
Is there any way i can determine the kit used for library preparation for whole exome sequencing from fastq files?
Agilent
NGS
library
kit
preparation
updated 4 hours ago by
ATpoint
77k • written 8 hours ago by
Harinder
• 0
0
votes
2
replies
244
views
QC of genetic data
PLINK
3 hours ago by
kl
▴ 10
0
votes
0
replies
30
views
Detection of CNVs with copy number greater than 4 by PennCNV
copy
AMY1
PennCNV
number
3 hours ago by
yamamoto.yasuyuki.n6
• 0
0
votes
2
replies
139
views
How can I compute energy from a protein PDB file?
pdb
protein
updated 2 hours ago by
Matthias Zepper
4.1k • written 1 day ago by
4fzcgueyp5
• 0
0
votes
0
replies
314
views
Can plantiSMASH be used with a transcriptome instead of a genome?
plantiSMASH
updated 20 hours ago by
Ram
40k • written 22 months ago by
kristina.mahan
▴ 160
0
votes
5
replies
1.3k
views
What Coverage allele-fraction threshold to use?
allele-fraction
snps
updated 20 hours ago by
Ram
40k • written 2.5 years ago by
kristina.mahan
▴ 160
0
votes
1
reply
1.3k
views
Convert .sqn file to .gbk
organelle
updated 20 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 20 hours ago by
Ram
40k • written 2.7 years ago by
kristina.mahan
▴ 160
32 results • Page
1 of 1
Recent Votes
Comment: How to convert data in r?
Bioinformatics short paper journal resource [software/webapps/database]
How To Write Data In A Granges Object To A Bed File.
Comment: Convert amino acid sequences into nucleotide sequences
Comment: Convert amino acid sequences into nucleotide sequences
Comment: Convert amino acid sequences into nucleotide sequences
Getting error in running rMATS
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Recent Replies
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!
Comment: Should I Learn Docker to Run Command Line Bioinformatics Tool?
by
Yogi
▴ 40
Fair enough
Comment: Help with error running velocyto
by
Chris
▴ 200
Unfortunately, I got a new error: MemoryError: bam file #0 could not be sorted by cells. This is probably related to an ol…
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