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 year
all time
today
this week
this month
this year
1,000 results • Page
2 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
8
replies
338
views
The inchworm process failed. Trinity running error.
inchworm
transcriptome
trinity
updated 3 days ago by
GenoMax
129k • written 4 days ago by
Marta
• 0
1
vote
2
replies
198
views
Combination of ROC CURVE
roccurve
R
AUC
22 hours ago by
Maria17
▴ 20
1
vote
0
replies
90
views
Considering gaps in calculating conservation score from MSA
multiple
alignment
sequence
conservation
python
4 days ago by
Jonathan Lefebre
▴ 50
0
votes
3
replies
178
views
DEGseq for multiple samples
DEGseq
DEG
updated 4 days ago by
Ram
39k • written 4 days ago by
ALOUSH ALI
• 0
0
votes
0
replies
78
views
Metabolomics Data Annotation
annotation
metabolomics
camera
updated 4 days ago by
Ram
39k • written 4 days ago by
Rishabh Jha
• 0
1
vote
3
replies
204
views
My kernel is killing the pairtools dedup script, how to prevent that?
ubuntu
hic
pairtools
aws
updated 4 days ago by
GenoMax
129k • written 4 days ago by
NikhilP
▴ 20
2
votes
2
replies
181
views
bioinformatic analysis protocol performed by CD Genomics
Genomics
CD
analysis
bioinformatic
Protocol
updated 4 days ago by
Dr William Klubinski
▴ 80 • written 4 days ago by
linnet.roque6
▴ 10
3
votes
12
replies
2.1k
views
What is NCBI Gene ID, where to find it and how to convert to entrez ID?
RNA-Seq
updated 4 days ago by
Pegasus
▴ 90 • written 3.7 years ago by
mnazir
▴ 10
0
votes
0
replies
103
views
RRBS fastq - biased per base sequence content
fastqc
rrbs
4 days ago by
mbk0asis
▴ 660
0
votes
0
replies
96
views
PRSice-2 using SNPs with extremely low P-value
PRSice-2
SNP
4 days ago by
Apprentice
▴ 140
0
votes
0
replies
302
views
What are the existing proposals for how to approach genomic coordinates in a pangenome reference environment?
coordinates
pangenome
genomic
4 days ago by
Vincent Laufer
★ 2.9k
0
votes
0
replies
104
views
Determining Cutoff for score in a bed file in ATAC-seq Data Analysis
bed
ATAC-seq
updated 4 days ago by
Ram
39k • written 4 days ago by
Mah
• 0
1
vote
3
replies
217
views
To call variants can I use my aligned WGS data as a reference genome
VCF
samtools
reference
genome
updated 4 days ago by
GenoMax
129k • written 5 days ago by
mls
• 0
0
votes
0
replies
106
views
snpEff error. No CDS checked
snpEff
gtf
WES
5 days ago by
fifty_fifty
▴ 40
0
votes
0
replies
106
views
Tool to align metagenomic data to reference genome
tool
metagenomics
alignment
5 days ago by
Maddie
• 0
1
vote
2
replies
206
views
how to look for interactions between different chromosomes
SNP
interactions
Gene
HiC
3 days ago by
rheab1230
▴ 140
2
votes
4
replies
235
views
Filter VCF file for variant alleles
VCF
variants
bcftools
vcftools
updated 4 days ago by
Ram
39k • written 5 days ago by
miguellarrazlopezdenovales
• 0
1
vote
0
replies
106
views
Linear models with limma: coefficients not estimatable, are the others OK?
limma
5 days ago by
fr
▴ 200
0
votes
2
replies
173
views
Ambient RNA expression correction
scRNAseq
SoupX
Seurat
updated 5 days ago by
rpolicastro
12k • written 5 days ago by
Pac314
▴ 10
0
votes
2
replies
163
views
readGenericHeader() error message Limma
rna
limma
microarray
genomics
normalization
4 days ago by
survive
• 0
1
vote
1
reply
127
views
mitochondrial genome, SRA PacBio sequencing.
Mitochondrial
PacBio
SRA
Mitogenome
updated 5 days ago by
GenoMax
129k • written 5 days ago by
hashim.rana11
▴ 20
0
votes
0
replies
80
views
metagenomics data - AMR genes
amr
resistome
resistance
ARG
metagenomics
5 days ago by
aziznasr1920
▴ 10
1
vote
3
replies
184
views
How to get a comperative result of 2 bed files?
bam
cnv
bed
updated 4 days ago by
Pierre Lindenbaum
154k • written 5 days ago by
herh
• 0
0
votes
0
replies
74
views
1000G reference panel for LD clumping
LD
5 days ago by
en_keser
• 0
0
votes
0
replies
84
views
Nucleotide alignments from mmseqs "tblastn"
mmseqs2
tblastn
mmseqs
5 days ago by
saladi
▴ 30
0
votes
2
replies
609
views
ERROR running Cuffmerge in reference based RNA-SEQ analysis?
cuffmerge
RNA-Seq
Cufflinks
updated 6 days ago by
Ram
39k • written 13 months ago by
Meeran
• 0
0
votes
7
replies
566
views
How to deal with duplicated gene IDs in TCGA RNA expression data?
TCGA
Expression
mRNA
updated 5 days ago by
Vincent Laufer
★ 2.9k • written 9 days ago by
Camilo Andres
▴ 30
0
votes
3
replies
202
views
Dada2 in Qiime2: losing reads during merging
Qiime2
Chimer
Dada2
updated 5 days ago by
andres.firrincieli
3.4k • written 6 days ago by
kamanovae
▴ 80
0
votes
1
reply
154
views
NCBI Common Taxonomy Tree
phylogenetic-tree
comparative-taxonomy
ncbi
updated 6 days ago by
GenoMax
129k • written 6 days ago by
fafad046
• 0
0
votes
3
replies
190
views
minimap's SAM file MAPQ value for the unique alignments
minimap
MAPQ
RNAseq
4 days ago by
Mohd
▴ 20
1
vote
2
replies
177
views
sorting BAM file
BAM
updated 5 days ago by
ATpoint
72k • written 6 days ago by
Mohammad Amin
• 0
0
votes
0
replies
88
views
Converting rds file to h5ad and saving raw counts as X
R
seurat
updated 6 days ago by
zx8754
11k • written 6 days ago by
sidrah.maryam
▴ 50
0
votes
1
reply
147
views
Seurat: How to get all genes name of a cell ?
seurat
updated 5 days ago by
jv
★ 1.2k • written 6 days ago by
Picasa
▴ 640
1
vote
0
replies
234
views
miRDeep2 installation showing "ln: failed to create symbolic link './randfold': File exists" error.
miRDeep2
updated 5 days ago by
Ram
39k • written 6 days ago by
Supernova
• 0
0
votes
0
replies
102
views
Bulk RNA sequencing time course pathway analysis progression visualization
time-course
RNA-seq
pathway
updated 6 days ago by
Ram
39k • written 6 days ago by
Fred
• 0
2
votes
2
replies
113
views
how to use Hemtools bed2vcf?
vcf
linux
conversion
bed
updated 6 days ago by
Pierre Lindenbaum
154k • written 6 days ago by
MobiusT
▴ 10
0
votes
1
reply
149
views
How to calculate SARS-2'S evolutionary rate
evolutionary-rate
updated 6 days ago by
Ram
39k • written 6 days ago by
chengc2016zzu
• 0
0
votes
0
replies
84
views
How to retrieve non-redundant restriction enzymes database from Rebase?
Rebase
Databases
enzymes
Restriction
6 days ago by
Mahmoud Reda
▴ 10
1
vote
2
replies
202
views
Converting RefSeq protein accession IDs into entreZ IDs
RNA-SEQ
5 days ago by
Pegasus
▴ 90
0
votes
0
replies
120
views
Merging multiple PLINK files
plink
merging
7 days ago by
Nejla
• 0
0
votes
0
replies
118
views
References selected by ExomeDepth CNV
CNV
ExomeDepth
updated 7 days ago by
GenoMax
129k • written 7 days ago by
keiko.asakura
• 0
0
votes
2
replies
224
views
BCR/TCR analysis using target capture sequencing data
capture
ngs
TCR
BCR
5 days ago by
J.F.Jiang
▴ 900
0
votes
2
replies
203
views
Upstream pseudogene causing MAPQ 0 and exclusion during variant calling
Mapping
Variant-calling
masking
updated 7 days ago by
Ram
39k • written 7 days ago by
Joel Wallenius
▴ 130
1
vote
3
replies
702
views
Regular Expression for conversion
Linux
grep
updated 6 days ago by
Joe
21k • written 19 months ago by
shabbas12
▴ 10
0
votes
1
reply
167
views
weird behaviour on bedtools
bedtools
RNA-Seq
updated 5 days ago by
Ram
39k • written 7 days ago by
barrypraveen
▴ 110
0
votes
2
replies
174
views
fgsea/clusterProfiler Packages for nCounter data enrichment analysis
nanostring
gsea
r
7 days ago by
pg45863
• 0
0
votes
1
reply
139
views
ABySS Process Killed
ABySS
genome
assembly
updated 7 days ago by
GenoMax
129k • written 7 days ago by
asarcillo
• 0
0
votes
0
replies
99
views
Cell type sub-clustering across multiple samples in scRNA-seq
scRNA-seq
7 days ago by
narges.bioinf
• 0
0
votes
3
replies
225
views
Query qbout single cell sequencing
fastq
ScRNA
updated 6 days ago by
Ram
39k • written 7 days ago by
abbas.waseem.gcu
▴ 20
0
votes
1
reply
187
views
How to introduce normalized and scaled seurat data into monocle 3?
Monocle
scRNA-seq
Seurat
updated 6 days ago by
fracarb8
▴ 950 • written 7 days ago by
Sun
• 0
1,000 results • Page
2 of 20
Recent Votes
Answer: Perl. How to retrieve data until a keyword in GenBank?
Answer: Perl script running slow with big files
A: Forward And Reverse Strand Conventions
Comment: hisat2 Error 137
Comment: NCBI API, Perl
Comment: Is hg38 on the multiz 30-way alignment inaccurate?
Answer: Is it possible to add a dendrogram as a top annotation using ComplexHeatmap ?
Recent Locations •
All
United States,
just now
State College, PA, Penn State,
1 minute ago
United States,
3 minutes ago
United States,
3 minutes ago
Bologna,
4 minutes ago
Brazil,
4 minutes ago
United States,
4 minutes ago
Recent Awards •
All
Popular Question
to
Maximilian Haeussler
★ 1.5k
Popular Question
to
arunkumarramrsh
▴ 40
Popular Question
to
pankaj.agarwal.duke
▴ 10
Popular Question
to
lumal29
▴ 80
Popular Question
to
Chris
▴ 100
Scholar
to
Mensur Dlakic
★ 23k
Teacher
to
GenoMax
129k
Recent Replies
Answer: Bedtools problem : It looks as though you have less than 3 columns at line: 1.
by
Michael
• 0
I ran into this issue. It was caused by the FASTA data being included in the GFF3 file I was working with. I truncated the file starting a…
Comment: NCBI API, Perl
by
MirianT_NCBI
▴ 590
Hi, Following Genomax' suggestion, you can use NCBI Datasets. I used the IDs you posted to create a list. ``` LOC105370256 LOC105377806 LO…
Comment: How to quantification proteomics data
by
eqoa45
• 0
Hello, can I ask how did you manage the solution?
Comment: Perl. How to retrieve data until a keyword in GenBank?
by
Fungi-Beware!
▴ 10
Doing it this way outputs the info, but it doesn't preserve the paragraphs (all the info gets smashed into a single line). Is there a way …
Comment: Is hg38 on the multiz 30-way alignment inaccurate?
by
Daniel
▴ 30
I am referring to chr2.maf which I found here (last updated 2017): https://hgdownload.soe.ucsc.edu/goldenPath/hg38/multiz30way/maf/ PHAST …
Answer: Spatial transcriptomics without the h5 file
by
Arvin
• 0
If you still have the problem, I have stablished a code for you to read any spatial expression using gene expression and spatial coordinate…
Comment: Trying to edit VCF file
by
peavy
• 0
I'm aware. I manually typed each one but those 3 when I submitted. I actually made that mistake the first time around and only kept the 3 I…
Comment: Trying to edit VCF file
by
Pierre Lindenbaum
154k
option -S in bcftools view is for the samples you want to KEEP.
Comment: Get relationships and hierarchies for GO terms
by
Buffo
★ 2.2k
Something like [GO enrichment analysis][1]? [1]: http://geneontology.org/docs/go-enrichment-analysis/
Comment: Trying to edit VCF file
by
peavy
• 0
yes. They should be removed I imagine?
Comment: NCBI API, Perl
by
GenoMax
129k
NCBI `datasets` does not seem to want to work with those ID's but that may be my limited knowledge. NCBI support staff visits Biostars and …
Comment: Is hg38 on the multiz 30-way alignment inaccurate?
by
Maximilian Haeussler
★ 1.5k
Can you provide an example? Which MAF file are you referring to, on the UCSC and Ensembl side. I can imagine a dozen different things that …
Comment: Trying to edit VCF file
by
Pierre Lindenbaum
154k
are they present in Fall22C.txt ?
Comment: Trying to edit VCF file
by
peavy
• 0
Y Z and AA ideally wont be there or come up in the vcf file if I removed them proper so I'm wondering what the issue is in the initial code.
Comment: Trying to edit VCF file
by
Pierre Lindenbaum
154k
> I noticed that there was still columns for what I removed from the file. so, what should we see in your image ??
Traffic: 2666 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