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910 results • Page
2 of 19
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Votes
Replies
0
votes
0
replies
92
views
Cell type sub-clustering across multiple samples in scRNA-seq
scRNA-seq
1 day ago by
narges.bioinf
• 0
0
votes
4
replies
514
views
Trimming sequencing primers from reads
trimming
primers
next-gen-sequencing
updated 1 day ago by
Pierre Lindenbaum
154k • written 5 months ago by
barzilayrom1
▴ 10
2
votes
4
replies
989
views
How to collapse leaves with the same name in ETE3 tree?
collapse
python
ete3
tree
updated 1 day ago by
susan.klein
▴ 30 • written 23 months ago by
Andrzej Zielezinski
11k
0
votes
3
replies
180
views
Query qbout single cell sequencing
fastq
ScRNA
updated 3 hours ago by
Ram
39k • written 1 day ago by
abbas.waseem.gcu
• 0
0
votes
1
reply
162
views
How to introduce normalized and scaled seurat data into monocle 3?
Monocle
scRNA-seq
Seurat
updated 13 hours ago by
fracarb8
▴ 950 • written 1 day ago by
Sun
• 0
0
votes
1
reply
164
views
Why coordinate sort is required in sambamba depths?
sorting
coordinate
sambamba
linux
samtools
updated 1 day ago by
Pierre Lindenbaum
154k • written 1 day ago by
MobiusT
▴ 10
0
votes
4
replies
258
views
I need help with a methyl array data analysis
methyl_array
DMPs
DMRs
beta_value
r
2 days ago by
Ahmad
▴ 10
0
votes
2
replies
221
views
Error in download library file in expression console software
expression
microarray
console
8 hours ago by
Mohammad
• 0
3
votes
2
replies
230
views
ScRNA data
scRNA-seq
updated 3 hours ago by
Ram
39k • written 2 days ago by
abbas.waseem.gcu
• 0
1
vote
2
replies
203
views
extract all fasta sequence from db v5
blast
protein
updated 2 days ago by
GenoMax
129k • written 2 days ago by
Xylanaser
▴ 80
3
votes
2
replies
323
views
Does the RNAseq data normal if the TPM value 3rd Qutile expression is near 10, but the Max expression are near 20,000
Expression
RNAseq
2 days ago by
alwayshope
▴ 20
0
votes
6
replies
320
views
Demultiplexing bam file
demultiplexing
bam_file
Iontorrent
1 day ago by
hasani.iut6
▴ 60
1
vote
2
replies
250
views
DEgs RNAseq
RNAseq
2 days ago by
Juan
• 0
1
vote
3
replies
400
views
Counting intronic reads in bulk RNA-seq
rna-seq
updated 2 days ago by
dsull
★ 4.2k • written 4 days ago by
John Ma
▴ 300
0
votes
11
replies
594
views
Single cell chemistry
cell
single
chemistry
updated 1 day ago by
swbarnes2
13k • written 3 days ago by
David
• 0
0
votes
0
replies
160
views
Different alternatives for downloading GWAS summary statistics en masse
GWAS
updated 3 hours ago by
Ram
39k • written 2 days ago by
Vincent Laufer
★ 2.8k
0
votes
7
replies
513
views
Why are some WES VCFs larger than others?
WES
sequencing
genomics
NGS
exome
updated 2 days ago by
Jeremy Leipzig
21k • written 3 days ago by
Kermit
▴ 80
0
votes
4
replies
356
views
SyntaxError (Perhaps you forgot a comma?) in snakefile when running FastQC.
snakemake
2 days ago by
Dhatri Badri
• 0
0
votes
1
reply
230
views
problem of Global Biobank Meta-analysis Initiative
GWAS
updated 2 days ago by
Fabio Marroni
★ 3.0k • written 3 days ago by
1362321710
• 0
1
vote
1
reply
216
views
DownsampleSam
picard
DownsampleSam
updated 3 days ago by
Pierre Lindenbaum
154k • written 3 days ago by
mathalfilip
• 0
0
votes
1
reply
219
views
Error while running Megahit
Megahit
updated 2 days ago by
Mensur Dlakic
★ 23k • written 3 days ago by
abhiramiabhirami9072
• 0
2
votes
5
replies
381
views
Cutadapt error: too many parameters.
cutadapt
parallel
bash
11 hours ago by
DanielEB_fisk
• 0
0
votes
0
replies
191
views
corresponding clinical data from TCGA database of PSI values for CCA AS events in spliceseq database
TCGA
4 days ago by
dima
• 0
1
vote
0
replies
246
views
How to assess which cell population is most affected by treatmant in single cell rna seq data?
transcriptomics
single-cell
RNA
DEG
4 days ago by
abbas89
▴ 10
0
votes
3
replies
375
views
metric informing about the similarity of gene lists in OrderedList
orderedlist
updated 4 days ago by
Vincent Laufer
★ 2.8k • written 5 days ago by
kkolmus
• 0
18
votes
6
replies
6.5k
views
VCF header line counting
vcf
header
updated 4 days ago by
beausoleilmo
▴ 530 • written 8.3 years ago by
basalganglia
▴ 40
0
votes
2
replies
248
views
How extract specific SNP position from the bed file-Bedtools
bedtools
for
Help
6 hours ago by
LionisOne
• 0
0
votes
1
reply
699
views
Can I send my PyMol results to a web-page as a result for a submitted query? If not, how can I get a 3d render of a protein as a result for a user su…
protein-structure
pymol
protein
pdb
python
updated 6 hours ago by
Joe
21k • written 4 days ago by
Aatif Hashmi
• 0
2
votes
6
replies
492
views
Design matrix to remove technical replicate effect
edgeR
updated 12 hours ago by
i.sudbery
17k • written 7 days ago by
ARD
▴ 10
0
votes
1
reply
296
views
Deferentially expressed gene with high log2foldchange by DESeq2; but not meaningful at the individual level
DESeq2
RNA-seq
DGEA
updated 4 days ago by
Vincent Laufer
★ 2.8k • written 4 days ago by
Sara
▴ 10
1
vote
2
replies
248
views
Abyss taking a Long time to run
abyss
assembly
genome
fastq
4 days ago by
Maliha
▴ 20
0
votes
2
replies
267
views
Import or read Snapgene .dna files into R
R
.dna
snapgene
4 days ago by
eggrandio
▴ 40
3
votes
4
replies
328
views
Segmentation fault Biopython pairwise alignment
biopython
alignment
updated 8 hours ago by
Joe
21k • written 4 days ago by
antoine.fauchois92
▴ 20
0
votes
3
replies
352
views
Biological replicates in RNA-seq
RNA-seq
biological-replicates
updated 4 days ago by
mark.ziemann
★ 1.8k • written 5 days ago by
Mars
• 0
0
votes
0
replies
155
views
BEAST Divergence time Analysis
time
BEAST
BEAUti
divergence
4 days ago by
ahmadjoyyia
▴ 10
0
votes
0
replies
170
views
Differential Gene Expression analysis in heterogeneous tissues
RNA-seq
deseq2
updated 4 days ago by
Ram
39k • written 4 days ago by
txema.heredia
▴ 70
2
votes
2
replies
311
views
Plotting heat map with significance based on multiple columns
R
Python
Heatmap
updated 4 days ago by
Matthias Zepper
3.7k • written 5 days ago by
sidrah.maryam
▴ 50
1
vote
1
reply
204
views
Issue with MiSeq Demultiplexing: Unexpected Ns in I5_Index
MiSeq
Demultiplexing
Sequencing
updated 4 days ago by
GenoMax
129k • written 4 days ago by
sergio.fern1994
• 0
4
votes
5
replies
511
views
bitr() doesn't recognize the keys I've entered as valid gene symbols for my organism's database ('SYMBOL').
pathway-analysis
clusterProfiler
4 days ago by
Medeea
• 0
4
votes
2
replies
335
views
vg: Mapping fewer reads to a genome graph than a linear reference
giraffe
mapping
pangenome
vg
updated 3 days ago by
samuel.a.odonnell
▴ 470 • written 5 days ago by
John Lloyd
▴ 30
0
votes
1
reply
220
views
Variant Annotation
Variant-Annotation
VCF
R
updated 4 days ago by
Ram
39k • written 4 days ago by
Chethana
• 0
0
votes
0
replies
178
views
News:
course - Advanced Python programming
Programming
DeepLearning
Python
MachineLearning
4 days ago by
carlopecoraro2
★ 2.3k
0
votes
1
reply
244
views
too many zeros in 16S rRNA amplicon sequencing data
16S
rRNA
updated 3 days ago by
andres.firrincieli
3.3k • written 4 days ago by
zhangdengwei
▴ 180
0
votes
0
replies
214
views
Job:
Looking for a internship or master's course in Bioinformatics
masters
internship
career
updated 4 days ago by
Ram
39k • written 4 days ago by
Khas-erdene
• 0
0
votes
1
reply
233
views
Seurat 'DoHeatmap()' hierarchical clustering
DoHeatmap
Seurat
clustering
updated 4 days ago by
fracarb8
▴ 950 • written 4 days ago by
sooni
• 0
3
votes
2
replies
303
views
Bioinformatics in drug designing
pharmaceutical
4 days ago by
nishimalhotra2612
▴ 40
0
votes
1
reply
200
views
Finding Kinetic Parameters from Western Blot images
image-processing
western-blot
updated 4 days ago by
Ram
39k • written 4 days ago by
Vijeth
• 0
3
votes
1
reply
3.2k
views
How To Interpret The Numbers In The Cnvnator Genotype Output
genotyping
updated 4 days ago by
lushjia
• 0 • written 10.4 years ago by
siyu
▴ 150
0
votes
0
replies
159
views
Chipseq data peak calling issue
ChIP-seq
RNA
sequencing
updated 3 hours ago by
Ram
39k • written 4 days ago by
Adyasha
• 0
0
votes
2
replies
290
views
NanoSim Error "Please specify the training reads and its reference genome!"
NanoSim
RNA-seq
LongRead
4 days ago by
akainth
• 0
910 results • Page
2 of 19
Recent Votes
Answer: How do you add an ORF that overlaps the two regions where a circular genome is c
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Comment: Regular Expression for conversion
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Comment: Salmon Index
Resequencing data of pangenome
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39k
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I am not entirely clear on what you are trying to accomplish, but based on @Trivas answer, I would first transform the data relative to ave…
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swbarnes2
13k
There really is no "best". Just find something reasonable, and document what you chose.
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Vincent Laufer
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ok interesting. Do all, most, some, or a few of the genes have repeated lines. Is there a handy link to the exact file you are looking at?
Answer: Make a BedGraph file
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bhumm
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Bedtools window piped into genomecov? https://bedtools.readthedocs.io/en/latest/content/tools/window.html https://bedtools.readthedocs.io…
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72k
STAR counts are the raw counts, that is appropriate for DESeq2.
Comment: RNAseq Data and Pipeline
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swbarnes2
13k
STAR has a GeneCounts output that looks as you describe; three columns, depending on whether one thinks the prep is unstranded, or stranded…
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by
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39k
There is at least one more step that you haven't shared, isn't there? This line alone does not get you the data. You don't need to give us …
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turcoa1
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my entire code is not done. All I am trying to understand is if the STAR - counts downloaded from this query have raw reads. There are head…
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39k
Please provide your entire code so those of us wishing to do a quick test can download and check for ourselves. Also, please use the format…
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It may be best to email NCBI help desk with these questions. Post their response here once you hear back from them.
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What data are you downloading? Can you show us your GDCquery commands please?
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129k
> I am using the Bos Taurus files Which organism are you actually working on? You have mentioned three so far, arabidopsis, human and now …
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