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45 results • Page
1 of 1
Sort: replies
Rank
Views
Votes
Replies
1
vote
14
replies
569
views
Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NULL > pointer.
blast
ncbi
1 hour ago by
hophuquy0944
• 0
2
votes
11
replies
544
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
just now by
egascon
• 0
3
votes
7
replies
262
views
Faster Needleman-Wunsch rapid global alignment of two sequences?
Needleman-Wunsch
alignment
updated 24 minutes ago by
DGTool
▴ 20 • written 18 hours ago by
Gabriel R.
★ 2.9k
1
vote
5
replies
256
views
Annotating file using bcftools
annotation
plink
bcftools
17 hours ago by
kl
▴ 10
1
vote
5
replies
218
views
Can I perform a correlation test with 3 biological replicates per condition?
RNA-Seq
deseq2
updated 8 hours ago by
Ram
43k • written 21 hours ago by
manuelmourato25
• 0
4
votes
5
replies
4.3k
views
Tool:
GRIDSS: the Genomic Rearrangement IDentification Software Suite
Assembly
Structural-Variation
Variant-Calling
updated 8 hours ago by
dario.garvan
▴ 520 • written 7.2 years ago by
d-cameron
★ 2.9k
0
votes
4
replies
242
views
calculating genomic coverage/ base overlap in R
genomics
updated 16 hours ago by
Ram
43k • written 1 day ago by
Xbox_27
• 0
3
votes
4
replies
328
views
finding evidence(s) of a peptide translated from an "Upstream Open Reading Frame (uORF)"
UTR
masspec
uORF
peptide
updated 18 hours ago by
GenoMax
142k • written 22 hours ago by
Pierre Lindenbaum
161k
3
votes
4
replies
242
views
Would you bother re-mapping RNA-seq data from an old GRCh38 build to a newer version?
RNA-seq
genome
updated 16 hours ago by
Ram
43k • written 23 hours ago by
Ali
• 0
1
vote
4
replies
293
views
In one PCA plot, can I calculate the percentage of different factors that contribute to the PCA?
PCA
R
VARIANCE
15 hours ago by
diqixiaoyaoer
▴ 10
1
vote
4
replies
207
views
Tool:
Converting Degree Minutes (DM) to Decimal Degrees (DD) using python script
Minutes
Decimal
offtopic
Degrees
python
updated 8 hours ago by
Ram
43k • written 1 day ago by
kuttibiotech2009
▴ 30
0
votes
4
replies
222
views
How to extract cells of different species after mapping with combined genome?
snRNA-seq
scRNA-seq
updated 2 hours ago by
Tony
• 0 • written 1 day ago by
vk
▴ 10
0
votes
3
replies
170
views
Merge clusters in Seurat UMAP
seurat
umap
updated 8 hours ago by
Ram
43k • written 11 hours ago by
kilcdincer
▴ 10
2
votes
3
replies
191
views
ggrepel function: geom_text_repel()
ggplot2
ggrepel
R
updated 8 hours ago by
Ram
43k • written 1 day ago by
sooni
▴ 20
3
votes
3
replies
220
views
Getting differential ChIP-seq peaks between conditions after calling consensus peaks
MAnorm
ChIP-seq
consensus
peaks
updated 22 hours ago by
ATpoint
82k • written 1 day ago by
Alexandra
• 0
1
vote
3
replies
266
views
Is there any way to modify this pie chart ?
pie
ggplot
R
chart
updated 13 hours ago by
GenoMax
142k • written 3 days ago by
ohtang7
▴ 40
1
vote
3
replies
793
views
About runing Pilon on individual chromosomes when polish draft genome assembly
Pilon
chromosome
polish
genome
draft
updated 13 hours ago by
sansan_96
▴ 90 • written 2.7 years ago by
boymin2020
▴ 80
3
votes
3
replies
162
views
getting exon coordinates
genomics
updated 16 hours ago by
Ram
43k • written 18 hours ago by
Xbox_27
• 0
0
votes
3
replies
167
views
Sam file Header problem
Sam
Header
problem
file
updated 14 minutes ago by
Pierre Lindenbaum
161k • written 1 day ago by
saifulislam99121
• 0
0
votes
2
replies
162
views
perseus software (version 1.5.5)
preseus
mass
spectrometry
data
updated 20 hours ago by
DGTool
▴ 20 • written 2 days ago by
iqra
• 0
3
votes
2
replies
173
views
Details on salmon index
Salmon
updated 15 hours ago by
Rob
6.6k • written 22 hours ago by
Lorenzo
• 0
1
vote
2
replies
222
views
Why does assigning genes with biomart give me different values than using a transcripts_to_genes.txt file?
biomart
RNAseq
kallisto
15 hours ago by
bioinfo
▴ 150
2
votes
2
replies
177
views
Cannot install bwa-mem2 via conda
conda
mamba
python
updated 17 hours ago by
Ram
43k • written 1 day ago by
jsmith120f
• 0
2
votes
2
replies
161
views
Single-cell ambient RNA correction: SoupX vs decontX contamination fraction
single-cell
ambient-RNA
updated 11 hours ago by
Ram
43k • written 14 hours ago by
txema.heredia
▴ 130
0
votes
1
reply
117
views
mitochondrial genome assembly pipeline
mammals
mitochondrial-genome
updated 16 hours ago by
Ram
43k • written 18 hours ago by
m90
▴ 30
0
votes
1
reply
60
views
How to generate table_annovar from VCF input?
vcf
annovar
updated 57 minutes ago by
LucisTheFather
• 0 • written 6 hours ago by
melissachua90
▴ 70
0
votes
1
reply
113
views
How can I calculate the OS of each patient?
overall-survival
updated 16 hours ago by
ATpoint
82k • written 16 hours ago by
Pedro
• 0
0
votes
1
reply
142
views
What's next after GATK variant calling pipeline?
GATK
pipeline
figures
DNA-seq
updated 22 hours ago by
Michael
54k • written 1 day ago by
mgranada3
▴ 30
1
vote
1
reply
183
views
Help with VG Toolkit: VCF Output is Empty
vg
updated 12 hours ago by
Jordan M Eizenga
▴ 460 • written 10 days ago by
sarumonsus
▴ 10
0
votes
1
reply
143
views
Difference in number of reads when using duplex and simplex base calling with Dorado
base
calling
nanopore
simplex
dorado
duplex
updated 17 hours ago by
GenoMax
142k • written 1 day ago by
Lélé
▴ 10
1
vote
1
reply
129
views
Tool:
Collect dispersed executable files and run them by using bingo.
bingo
updated 8 hours ago by
Ram
43k • written 1 day ago by
dwpeng
▴ 10
0
votes
1
reply
143
views
Seurat v5 and how to correctly integrate across multiple experiments
Seurat
scRNA
R
updated 20 hours ago by
Papyrus
★ 2.9k • written 1 day ago by
yura.grabovska
▴ 90
0
votes
1
reply
109
views
API kegg - IndexError: list index out of range
kegg
API
updated 4 hours ago by
Nyksubuz
▴ 10 • written 22 hours ago by
mirwa.zidi93
• 0
0
votes
1
reply
122
views
Add line under stat test
stats
R
updated 3 hours ago by
Nyksubuz
▴ 10 • written 1 day ago by
Ghada
• 0
0
votes
1
reply
67
views
Tutorial:
solution-Transcriptome.cpp:18:Transcriptome: exiting because of *INPUT FILE* error: could not open input file /geneInfo.tab #2142
STAR
written 4 hours ago by
huxiangyulove
• 0
0
votes
1
reply
100
views
BiomartException: Query ERROR for existing dataset in BioMart
biomart
ensembl
wheat
python
pybiomart
updated 2 hours ago by
Nyksubuz
▴ 10 • written 1 day ago by
Luqman
• 0
0
votes
0
replies
73
views
Blog:
The Current State and Future Prospects of Long-Read Sequencing
LRS
23 hours ago by
Novogene
▴ 420
0
votes
0
replies
65
views
cat-bgen fail
bgenix
updated 16 hours ago by
Ram
43k • written 16 hours ago by
lambard
• 0
0
votes
0
replies
53
views
Help! Reconstruction of locus, order contigs
contigs
cluster
alignment
locus
8 hours ago by
BATMAN
• 0
0
votes
0
replies
71
views
News:
Course on Manual Genome Curation
Genome-Assembly
Pretext-View
Manual-Genome-Curation
updated 8 hours ago by
Ram
43k • written 15 hours ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
20
views
How do I quantify the non-coding transcripts that I have generated after using CPAT,PLEK, and BLAST altogether?
transcript
Quantify
non-coding
1 hour ago by
Varsha
• 0
0
votes
0
replies
50
views
Help interpreting KEGG module definitions for converting to NetworkX graph
definition
kegg
module
database
genomics
7 hours ago by
O.rka
▴ 720
0
votes
0
replies
50
views
How to handle duplicated genes in TCGA data?
TCGA
GDC
mRNA
7 hours ago by
Ngrin
• 0
0
votes
0
replies
59
views
Use of ichor CNA
Dog
CNA
genome
13 hours ago by
sainavyav22
• 0
0
votes
0
replies
65
views
Error when running create-maf-vcf at convertGVCFToHVCFForChrom step - PHGv2
PHG
pangenome
PHG_v2
15 hours ago by
Jsarria.EEAD
• 0
45 results • Page
1 of 1
Recent Votes
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
lncRNA and ncPEPs identification
Answer: Identifying common DEGs among multiple datasets
Answer: ggrepel function: geom_text_repel()
Comment: switch off warning in blast command line
Forward And Reverse Strand Conventions
Answer: Would you bother re-mapping RNA-seq data from an old GRCh38 build to a newer ver
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Recent Replies
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
by
egascon
• 0
Thank you very much again. I have learned a lot of things.
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
by
egascon
• 0
It's a microarryay experiment, not RNASeq
Comment: Sam file Header problem
by
Pierre Lindenbaum
161k
https://gatk.broadinstitute.org/hc/en-us/articles/360035890671-Read-groups
Answer: Faster Needleman-Wunsch rapid global alignment of two sequences?
by
DGTool
▴ 20
I have also recently come across another global alignment algorithm that was recently released which could seem pretty interesting to test …
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences?
by
b.contreras.moreira
▴ 190
Not sure, you might ask in the repo, please share here the response if you find it
Answer: How to generate table_annovar from VCF input?
by
LucisTheFather
• 0
Would you be more specific to your question? Do you mean how to debug this syntax error?
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
hophuquy0944
• 0
thank you
Comment: How to extract cells of different species after mapping with combined genome?
by
Tony
• 0
I think this method should be applicable to all high-throughput single-cell RNA-seq platforms. Although the method of determining cell spec…
Comment: BiomartException: Query ERROR for existing dataset in BioMart
by
Nyksubuz
▴ 10
The dataset you want (taestivum_eg_gene) exists within the "plants_mart" schema, not the default schema. Your current code assumes the defa…
Comment: Add line under stat test
by
Nyksubuz
▴ 10
You could use [this][1] [1]: https://ggplot2.tidyverse.org/reference/geom_segment.html
Comment: API kegg - IndexError: list index out of range
by
Nyksubuz
▴ 10
It might be because the gene symbol is not found in the KEGG database. Add some extra error handling before parsing the results or do a man…
Comment: Sam file Header problem
by
saifulislam99121
• 0
Thank you for your reply. I am not very much sure about this RG. Can you explain me a bit?
Comment: GRIDSS: the Genomic Rearrangement IDentification Software Suite
by
dario.garvan
▴ 520
It seems that Alexandrov's [structural variant and copy number signatures][1] estimated by the [SigProfiler software ecosystem][2] aren't c…
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences?
by
GenoMax
142k
Then you may want to see if a program like `lastz` ([**LINK**][1]) may be useful. [1]: https://github.com/lastz/lastz
Comment: Collect dispersed executable files and run them by using bingo.
by
Ram
43k
What is the purpose of this tool? I have `~/bin` in my $PATH and I soft-link all executables I need to that location so why install a new t…
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