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687 results • Page
2 of 14
Sort: Rank
Rank
Views
Votes
Replies
1
vote
5
replies
373
views
Reconstruction of locus, order contigs
contigs
cluster
alignment
locus
updated 3 days ago by
dthorbur
★ 2.0k • written 3 days ago by
BATMAN
• 0
0
votes
6
replies
363
views
ComplexHeatmap - How to change fontsize of rowAnnotation
ComplexHeatmap
3 days ago by
hannes.bongartz
• 0
0
votes
0
replies
147
views
Understanding behaviour of SCTransform in Seurat
Seurat
scRNASeq
normalization
updated 3 days ago by
GenoMax
142k • written 3 days ago by
yura.grabovska
▴ 90
4
votes
7
replies
539
views
In one PCA plot, can I calculate the percentage of different factors that contribute to the PCA?
PCA
R
VARIANCE
updated 3 days ago by
marco.barr
▴ 130 • written 5 days ago by
diqixiaoyaoer
▴ 20
1
vote
1
reply
202
views
constructing pangenome through psvcp
psvcp
pangenome
2 days ago by
analyst
▴ 50
0
votes
4
replies
293
views
What marks a De-Novo Genome assembly as FAILED?
nanopore
denovo
illumina
assembly
genome
updated 5 hours ago by
dthorbur
★ 2.0k • written 3 days ago by
Umer
▴ 50
0
votes
4
replies
350
views
How to handle duplicated genes in TCGA data?
TCGA
GDC
mRNA
updated 2 days ago by
txema.heredia
▴ 130 • written 3 days ago by
Ngrin
• 0
4
votes
9
replies
491
views
Faster Needleman-Wunsch rapid global alignment of two sequences?
Needleman-Wunsch
alignment
3 days ago by
Gabriel R.
★ 2.9k
0
votes
2
replies
251
views
How to generate table_annovar from VCF input?
vcf
annovar
updated 3 days ago by
Pierre Lindenbaum
161k • written 3 days ago by
melissachua90
▴ 70
0
votes
0
replies
134
views
How do I quantify the non-coding transcripts that I have generated after using CPAT,PLEK, and BLAST altogether?
transcript
Quantify
non-coding
3 days ago by
Varsha
• 0
0
votes
1
reply
423
views
solution-Transcriptome.cpp:18:Transcriptome: exiting because of *INPUT FILE* error: could not open input file /geneInfo.tab #2142
STAR
updated 3 days ago by
GenoMax
142k • written 3 days ago by
huxiangyulove
• 0
0
votes
0
replies
152
views
Help interpreting KEGG module definitions for converting to NetworkX graph
definition
kegg
module
database
genomics
3 days ago by
O.rka
▴ 720
4
votes
5
replies
4.4k
views
Tool:
GRIDSS: the Genomic Rearrangement IDentification Software Suite
Assembly
Structural-Variation
Variant-Calling
updated 3 days ago by
dario.garvan
▴ 520 • written 7.2 years ago by
d-cameron
★ 2.9k
0
votes
4
replies
341
views
Merge clusters in Seurat UMAP
seurat
umap
3 days ago by
kilcdincer
▴ 10
0
votes
0
replies
158
views
Use of ichor CNA
Dog
CNA
genome
4 days ago by
sainavyav22
• 0
2
votes
2
replies
278
views
Single-cell ambient RNA correction: SoupX vs decontX contamination fraction
single-cell
ambient-RNA
updated 4 days ago by
Ram
43k • written 4 days ago by
txema.heredia
▴ 130
1
vote
0
replies
167
views
News:
Course on Manual Genome Curation
Genome-Assembly
Pretext-View
Manual-Genome-Curation
updated 3 days ago by
Ram
43k • written 4 days ago by
carlopecoraro2
★ 2.5k
6
votes
4
replies
356
views
Details on salmon index
Salmon
updated 3 days ago by
Rob
6.6k • written 4 days ago by
Lorenzo
• 0
0
votes
0
replies
160
views
Error when running create-maf-vcf at convertGVCFToHVCFForChrom step - PHGv2
PHG
pangenome
PHG_v2
4 days ago by
Jsarria.EEAD
• 0
0
votes
2
replies
242
views
How can I calculate the OS of each patient?
overall-survival
3 hours ago by
Pedro
• 0
1
vote
1
reply
218
views
mitochondrial genome assembly pipeline
mammals
mitochondrial-genome
updated 4 days ago by
Ram
43k • written 4 days ago by
m90
▴ 30
0
votes
0
replies
153
views
cat-bgen fail
bgenix
updated 4 days ago by
Ram
43k • written 4 days ago by
lambard
• 0
3
votes
4
replies
342
views
Would you bother re-mapping RNA-seq data from an old GRCh38 build to a newer version?
RNA-seq
patch
freeze
genome
updated 3 days ago by
Jeremy Leipzig
22k • written 4 days ago by
Ali
• 0
3
votes
3
replies
252
views
getting exon coordinates
genomics
updated 4 days ago by
Ram
43k • written 4 days ago by
Xbox_27
• 0
0
votes
4
replies
334
views
How to extract cells of different species after mapping with combined genome?
snRNA-seq
scRNA-seq
updated 3 days ago by
Tony
• 0 • written 5 days ago by
vk
▴ 10
1
vote
5
replies
324
views
Can I perform a correlation test with 3 biological replicates per condition?
RNA-Seq
deseq2
updated 3 days ago by
Ram
43k • written 4 days ago by
manuelmourato25
• 0
3
votes
4
replies
416
views
finding evidence(s) of a peptide translated from an "Upstream Open Reading Frame (uORF)"
UTR
masspec
uORF
peptide
updated 4 days ago by
GenoMax
142k • written 4 days ago by
Pierre Lindenbaum
161k
2
votes
11
replies
739
views
DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts in whole blood: is it normal to always get NS?
rstudio
DEG
limma
3 days ago by
egascon
• 0
1
vote
1
reply
202
views
API kegg - IndexError: list index out of range
kegg
API
updated 3 days ago by
Nyksubuz
▴ 20 • written 4 days ago by
mirwa.zidi93
• 0
0
votes
0
replies
146
views
Blog:
The Current State and Future Prospects of Long-Read Sequencing
LRS
4 days ago by
Novogene
▴ 420
0
votes
0
replies
144
views
qPCR gene expression data analysis
qPCR
geneexpression
anova
4 days ago by
ebertomeup
• 0
0
votes
3
replies
283
views
Sam file Header problem
Sam
Header
problem
file
updated 3 days ago by
Pierre Lindenbaum
161k • written 4 days ago by
saifulislam99121
• 0
1
vote
3
replies
289
views
Tool:
Converting Degree Minutes (DM) to Decimal Degrees (DD) using python script
Minutes
Decimal
offtopic
Degrees
python
updated 3 days ago by
Ram
43k • written 5 days ago by
kuttibiotech2009
▴ 30
0
votes
1
reply
594
views
scRNAseq quality control weird double curve in nFeature vs nCount plot
scRNA-seq
QC
single
cell
BDRhapsody
analysis
updated 4 days ago by
valdirbarth
▴ 20 • written 12 months ago by
Salomé
• 0
0
votes
0
replies
149
views
select set of intervals that cover a genomic region
GRanges
bed
4 days ago by
ntsopoul
▴ 60
1
vote
1
reply
197
views
Tool:
Collect dispersed executable files and run them by using bingo.
bingo
updated 3 days ago by
Ram
43k • written 4 days ago by
dwpeng
▴ 10
0
votes
2
replies
214
views
BiomartException: Query ERROR for existing dataset in BioMart
biomart
ensembl
wheat
python
pybiomart
20 hours ago by
Luqman
• 0
2
votes
3
replies
258
views
ggrepel function: geom_text_repel()
ggplot2
ggrepel
R
updated 3 days ago by
Ram
43k • written 4 days ago by
sooni
▴ 20
0
votes
5
replies
303
views
how to treat the replicates while performing WGCNA
clustering
WGCNA
replicates
31 minutes ago by
mavy
▴ 10
1
vote
1
reply
250
views
Calculate allelic frequency from VEP output vcf file
VEP
variant
5 days ago by
ramiro.barrantes
• 0
2
votes
6
replies
1.9k
views
How can you *consistently* download BioProject IDs from NCBI's BioSample database using Entrez Direct?
XML
ncbi
entrez-direct
updated 5 days ago by
Ram
43k • written 3.9 years ago by
millere
• 0
0
votes
1
reply
178
views
What's next after GATK variant calling pipeline?
GATK
pipeline
figures
DNA-seq
updated 4 days ago by
Michael
54k • written 5 days ago by
mgranada3
▴ 30
0
votes
1
reply
157
views
Add line under stat test
stats
R
updated 3 days ago by
Nyksubuz
▴ 20 • written 5 days ago by
Ghada
• 0
1
vote
5
replies
812
views
Converting IGV to Figure using Illustrator (or other tools)
Illustrator
IGV
written 6 months ago by
Daniel
▴ 30
0
votes
0
replies
115
views
DOCK6 installation on MacOS M1
installation
troubleshooting
DOCK6
updated 5 days ago by
GenoMax
142k • written 5 days ago by
Rodolfo Adrián
• 0
1
vote
3
replies
211
views
Genotyping sites with N in reference genome
GATK
UnifiedGenotyper
updated 5 days ago by
Zhenyu Zhang
★ 1.2k • written 5 days ago by
shpak.max
▴ 50
2
votes
4
replies
279
views
Can 5' and 3' scRNAseq be processed with the same pipeline?
singlecell
seurat
10XGenomics
scRNAseq
updated 5 days ago by
yura.grabovska
▴ 90 • written 5 days ago by
ev97
▴ 20
1
vote
16
replies
758
views
Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NULL > pointer.
blast
ncbi
updated 2 days ago by
GenoMax
142k • written 5 days ago by
hophuquy0944
• 0
0
votes
4
replies
248
views
Sequencing Depth (Read Depth) Calculations
depth
4 days ago by
LucisTheFather
• 0
0
votes
1
reply
143
views
Wrong ZYGOSITY by ensembl vep on DeepVariant vcf file
annotation
vcf
vep
zygosity
deepvariant
5 days ago by
asalimih
▴ 60
687 results • Page
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Recent Votes
Answer: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
A: Bcftools merge taking too much time and producing large file
Answer: Kraken2 database
A: Why gene expression data should be log2 transformed?
Answer: Filter Genome for Specific Sites
Answer: Filter Genome for Specific Sites
Answer: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
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Comment: how to treat the replicates while performing WGCNA
by
mavy
▴ 10
Hello I have a quick question, I did as you said , and further added the traits, found the correlation among the modules and the traits us…
Answer: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
by
ojaswinipandey
• 0
Thank you so much Dave.
Answer: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
by
Dave Carlson
★ 1.7k
The y axis represents the proportion of the total variance explained by each principal component. It's negative because the value (between…
Comment: Error in using BioSampleParser tool: subscript out of bounds
by
marco.barr
▴ 130
Hi Mohamed, I also thought the same thing but we run the risk of inserting other errors perhaps by modifying the function. I tried but I ha…
Comment: Trimming tool
by
Ram
43k
Please do a few simple Google searches before asking others for help.
Comment: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
by
Ram
43k
This post does not fit the theme of this forum.
Comment: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
by
Ram
43k
Hi, Congratulations but this is not LinkedIn, we are not a place to showcase your professional accomplishments. This does not fall under t…
Comment: Kraken2 Custom Database non-deterministic results
by
GenoMax
142k
Many (most?) programs related to NGS data analysis produce non-deterministic output (unless they explicitly offer an option to produce dete…
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
GenoMax
142k
For those samples it appears that raw data was not submitted. Just an assembly. $ esearch -db biosample -query SAMN08009548 | elink -…
Comment: How can I calculate the OS of each patient?
by
Pedro
• 0
**I have already tried this code. listSamples with HNSC cancer and smokers. I need at least one supporting material to find out the survi…
Comment: Filter Genome for Specific Sites
by
Anita
• 0
Great, thank you!
Comment: Filter Genome for Specific Sites
by
Anita
• 0
This is unhelpful and doesn't answer my question.
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
Harshita
• 0
It seems that the authors in this paper have used paired-end sequences only for their analysis, and for that, they would also have used the…
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
Harshita
• 0
Thank you so much for helping me out in this! I have used most of the sequences that are found in this table. But, some samples like the…
Answer: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
GenoMax
142k
Looks like the samples are from this project: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA320483&o=acc_s%3Aa This table has the SR…
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