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232 results • Page
2 of 5
Sort: Votes
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Votes
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1
vote
2
replies
527
views
Portfolio project ideas for a starting bioinformatics software developer?
software-development
project
updated 5 hours ago by
Ram
38k • written 12 months ago by
d
• 0
1
vote
5
replies
3.5k
views
p.adjust with n < than number of tests
bioconductor
R
updated 2 days ago by
Ram
38k • written 7.8 years ago by
yogacacarolom
▴ 70
1
vote
0
replies
2.0k
views
Definition of splicing eQTLs in RNA-Seq and arrays
genome
RNA-Seq
snp
updated 5 days ago by
Ram
38k • written 7.8 years ago by
User 7754
▴ 250
0
votes
1
reply
2.4k
views
OpenSNP and SNP position information
OpenSNP
updated 5 days ago by
Ram
38k • written 7.8 years ago by
bfeeny
▴ 50
0
votes
5
replies
393
views
ceres score in crispr screen
ceres
crispr
ngs
2 days ago by
edus_bioinfo
▴ 20
0
votes
0
replies
2.9k
views
bowtie2 output all aligned reads from paired alignment (even unconcordant pairs or single reads)
Assembly
bowtie2
SAM
alignment
BAM
updated 5 days ago by
Ram
38k • written 7.8 years ago by
JV
▴ 450
0
votes
0
replies
157
views
which tool to use for Transposon structure finding CENSOR or repeat masker ??
transposon
DNA
repeat
CENSOR
masker
5 days ago by
manaswiniparija3
▴ 10
0
votes
0
replies
168
views
what does ALT ID DUP refer to when ALT ID for copy number are already specified
ALT
ID
CNV
VCF
6 days ago by
anubratadas
▴ 20
0
votes
7
replies
370
views
Clustering and dynamic tree cutting
dynamicTreeCut
Clustering
data
RNAseq
cutreeDynamic
updated 1 day ago by
andres.firrincieli
3.1k • written 5 days ago by
harish
• 0
0
votes
0
replies
195
views
Protocol to detect chromosomal ploidy from WGS VCF?
wgs
ploidy
5 days ago by
optimistsso4co3
▴ 100
0
votes
0
replies
148
views
Statistical test on two phylogenetically remote groups
phylogeny
ANOVA
4 days ago by
liorglic
★ 1.1k
0
votes
2
replies
188
views
scATAC-seq workflow
Signac
scATAC-seq
3 days ago by
bioinformatics.girl
• 0
0
votes
0
replies
167
views
VNTR genotyping
NGS
VNTR
genotyping
6 days ago by
Genotepes
▴ 950
0
votes
0
replies
184
views
Aligning genome sequences
Linux
Genome
updated 5 hours ago by
Ram
38k • written 12 months ago by
taimur.al-said
▴ 10
0
votes
0
replies
99
views
Questions about HVGs and HEGs in single cell research
single-cell
machine-learning
updated 1 day ago by
Ram
38k • written 1 day ago by
me
• 0
0
votes
2
replies
209
views
merging and annotating bcf files for variant calling
vcf
bcf
bcftools
variant-calling
updated 1 day ago by
Ram
38k • written 10 days ago by
pr.khavari
• 0
0
votes
0
replies
103
views
RagTag patch error--"tuple index out of range"
correction
ragtag
scaffolding
2 days ago by
schmiggle
• 0
0
votes
5
replies
2.9k
views
Short homopolymer runs overrepresented at 3' ends of R2 Illumina RNAseq reads, breaking tophat alignment
RNA-Seq
QC
updated 1 day ago by
Ram
38k • written 7.9 years ago by
ethan.kaufman
▴ 380
0
votes
0
replies
1.4k
views
Bacterial RNAseq transcription start sites
alignment
RNA-Seq
bacteria
updated 2 days ago by
Ram
38k • written 7.8 years ago by
D.a.forrest
• 0
0
votes
0
replies
2.6k
views
converting vcf to gds losing some snps
gds
vcf
updated 1 day ago by
Ram
38k • written 7.8 years ago by
gulcek
▴ 20
0
votes
0
replies
1.5k
views
Mapmi error, no alignments found.
MapMi
Dust
updated 1 day ago by
Ram
38k • written 7.8 years ago by
The Last Word
▴ 230
0
votes
1
reply
280
views
How to calculate 2.5% pvalues for the 2 ends of the distribution?
numpy
t-test
python
genomics
updated 6 days ago by
Ram
38k • written 7 weeks ago by
Virat_Baahubali
• 0
0
votes
0
replies
1.7k
views
Get a CSI-BLAST PSSM
PSI-BLAST
CS-BLAST
PSSM
Protein
updated 5 days ago by
Ram
38k • written 7.8 years ago by
ddofer
▴ 30
0
votes
3
replies
475
views
Merging compressed fastq files based on a conditions defined in a csv file
bash
linux
updated 6 days ago by
Ram
38k • written 12 months ago by
D
• 0
0
votes
5
replies
2.2k
views
CEGMA on human assembly
CEGMA
Assembly
updated 6 days ago by
Ram
38k • written 7.8 years ago by
ulike
• 0
0
votes
0
replies
102
views
database for better classification of illumina contigs
classification
illumina
contigs
NR
updated 1 day ago by
GenoMax
125k • written 1 day ago by
sapuizait
▴ 10
0
votes
0
replies
280
views
Locating locus in DNA sequence in Genbank
GenBank
sequence
DNA
updated 4 hours ago by
Ram
38k • written 14 months ago by
sushi
▴ 10
0
votes
1
reply
1.4k
views
issues in genotyping using TaqMan Assay
TaqMan
genotyping
updated 6 days ago by
Ram
38k • written 7.8 years ago by
jfjiang
▴ 10
0
votes
4
replies
291
views
Help converting .CYCHP to .txt or .csv or .vcf
cychp
6 days ago by
Sarah
• 0
0
votes
1
reply
2.2k
views
missing probeID in affymetrix using oligo package
affymetrix
updated 6 days ago by
Ram
38k • written 7.7 years ago by
benhrif.oussama
• 0
0
votes
0
replies
104
views
Using bigWigCompare to correct for input signal
chip
input
peaks
bigwig
deeptools
1 day ago by
Maycon
• 0
0
votes
0
replies
105
views
network alignment and network regression
network
2 days ago by
Bogdan
★ 1.3k
0
votes
4
replies
1.3k
views
subsetting sets of scaffolds based on sequence similarity
sam
NGS
bam
Assembly
updated 1 day ago by
Ram
38k • written 7.8 years ago by
ramesh.8v
▴ 210
0
votes
0
replies
128
views
How to identify nodes in a network with a higher degree and higher edge variance?
network
WGCNA
variance
igraph
8 hours ago by
adR
▴ 100
0
votes
2
replies
163
views
How I know the genome assembly quality by the low coverage Pacbio data ?
genome
Pacbio
17 hours ago by
wdpang
• 0
0
votes
4
replies
202
views
geom_errorbar not dodging or producing horizontal line
ggplot2
geom_errorbar
updated 1 day ago by
FrankStarling
▴ 30 • written 2 days ago by
bsp017
▴ 40
0
votes
5
replies
1.9k
views
Modifying bam file sequence names according to 2nd column
bam
updated 2 days ago by
Ram
38k • written 7.8 years ago by
jyu429
▴ 120
0
votes
1
reply
3.5k
views
Processing OrthoMCL output file, "groups.txt" to create a venn diagram
genome-comparison
OrthoMCL
Core-genome
orthologs
updated 1 day ago by
Ram
38k • written 7.9 years ago by
jc_0919
• 0
0
votes
1
reply
143
views
Filter InterProScan output for a specific function
interproscan
annotation
updated 2 days ago by
jv
▴ 800 • written 3 days ago by
Purger
• 0
0
votes
0
replies
1.5k
views
69% missing genotypes in GEO processed matrix file
SNP
updated 2 days ago by
Ram
38k • written 7.8 years ago by
ludongsheng
• 0
0
votes
0
replies
99
views
Trying to understand the difference between between these two HGVS
hgvs
2 days ago by
curious
▴ 720
0
votes
2
replies
178
views
Copy Number Variants, where to start?
CNV
annotation
11 hours ago by
paolo
▴ 60
0
votes
0
replies
1.6k
views
Error in Snp set analysis using MetaSKAT
MetaSKAT
R
updated 2 days ago by
Ram
38k • written 7.8 years ago by
NB
▴ 960
0
votes
2
replies
1.4k
views
Intron orders transcripts like encoded amino acid
mRNA
amino-acid
RNA-Seq
intron
transcript
updated 10 hours ago by
Ram
38k • written 7.8 years ago by
kevberm
• 0
0
votes
7
replies
408
views
CoveragePlot in Signac from MACS2 Object
Signac
scATAC-seq
updated 5 days ago by
seidel
10k • written 6 days ago by
bioinformatics.girl
• 0
0
votes
0
replies
143
views
Bootstrap in PhyML
phyml
bootstrap
6 days ago by
Jimpix
▴ 10
0
votes
0
replies
99
views
Can't convert paired end BAM to bed using bedtools
BAM
BEDPE
updated 2 days ago by
GenoMax
125k • written 2 days ago by
oksana03fel
• 0
0
votes
0
replies
179
views
Sequence Homology locator
Sequence
Homology
Genome
finder
4 days ago by
himalayan_yeti
• 0
0
votes
0
replies
51
views
Normalizing chip-seq signals with different number of peaks
across
normalization
chip
samples
chip-seq
6 hours ago by
Rajendra KC
• 0
0
votes
2
replies
2.5k
views
Which method is good for getting logFC for pairwise comparsion of replicates?
RNA-Seq
updated 2 days ago by
Ram
38k • written 7.8 years ago by
mike
▴ 90
232 results • Page
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Recent Votes
Answer: installation of bioclite gives an error
Answer: installation of bioclite gives an error
A: FindConservedMarkers vs FindMarkers vs FindAllMarkers Seurat
Comment: difference between chip-seq and association study
C: Ballgown Error in file(file, "rt") : invalid 'description' argument
Subbmission Data
Finding Reference Sequences And Interpretation Of Data From Repeatmasker Ucsc Tables
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paria.alipour
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Teacher
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Recent Replies
Comment: installation of bioclite gives an error
by
rheab1230
▴ 120
Thank you so much. This works.
Answer: WGCNA TOM calculation time
by
tothepoint
▴ 720
I remeber I was working on highmem cluster and it took around a week to finish. Although, I consider Kevin suggestion and filtered the rea…
Answer: installation of bioclite gives an error
by
Kevin Blighe
84k
Hi, Installation via biocLite is no longer used. Please install packages via the *BiocManager* package, for example: BiocManager:…
Comment: difference between chip-seq and association study
by
rheab1230
▴ 120
okay, so in order to get a complete picture i can combine both of these methods?
Comment: Error with FindConservedMarkers()
by
Chris
▴ 60
Could other admins have a look?
Comment: What should I do if the gene IDs in my reference dataset and test dataset are di
by
paria.alipour
▴ 70
Here is the code that worked for me #read in the ref dataset reference <- readRDS("DR.rds") #convert ensemble id to gene symbol, I found …
Comment: WGCNA TOM calculation time
by
Michele
• 0
Hi tothepoint! I know it's been a long time, but I couldn't find an answer to this question and I'm now having the same question. So do you…
Answer: How to find the difference between old and current releases in UniprotKB
by
GenoMax
125k
> For specific entry id, what it has changed from previous releases to > current releases. If you are talking about a specific UniProt …
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by
vkkodali_ncbi
★ 3.4k
Try `latest_refseq` instead of `latest refseq`. Or, use quotes for it, like this: `'Microbacterium[Organism] AND "latest refseq"[Filter] NO…
Answer: PyMOL: Gaps in protein structure yet shown by the sequence
by
Mensur Dlakic
★ 22k
Dashing lines indicate that at least one residue is missing in the structure, possibly more. If you search for `REMARK 465` in the PDB f…
Answer: How to find the difference between old and current releases in UniprotKB
by
Mensur Dlakic
★ 22k
Not sure that you realize how many sequences are in UniProtKB. I don't think there is a way of doing this in a reasonable amount of time by…
Comment: How to determine the optimal number of clusters?
by
seidel
10k
Do you have a definition of optimal? Do you have a context in which something can be more optimal or less optimal? Can you provide any more…
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10k
GEO allows you to keep your data private for up to three years, AND has a mechanism where you can share it with reviewers without it being …
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spence.lank
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The PDB ID for this structure is 7DK3 and the literature is here: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7775788/
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by
ATpoint
69k
You do not do what I suggested above.
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