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64 results • Page
1 of 2
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0
votes
0
replies
1
view
Why were all TCGA SVS slides redacted?
slides
slide
tcga
svs
digital
just now by
ceruleanivy
▴ 30
0
votes
0
replies
7
views
Filter contig fasta file by GC content
contig
gc
14 minutes ago by
victoriahristovaa
• 0
0
votes
0
replies
4
views
DisGeNET plugin usage error
DisGeNET
phenotype
plugin
vep
17 minutes ago by
enes
• 0
0
votes
0
replies
4
views
negative BAF values OH
LOH
cnvkit
BAF
20 minutes ago by
John
• 0
0
votes
2
replies
63
views
MASURCA output
masurca
1 hour ago by
kilcdincer
▴ 10
0
votes
0
replies
16
views
Job:
Research assistant in straining engineering at DTU Center of Biosustainability
engineering
coli
Biofoundry
E.
Strain
2 hours ago by
info
▴ 60
0
votes
0
replies
16
views
Job:
Research assistant for yeast natural products project at DTU Biosustain
yeast
preps
DNA
DTU
Biosustain
CRISPR
2 hours ago by
info
▴ 60
0
votes
5
replies
52
views
how to select peaks at not transcribed genes
bedtools
transcribed
peaks
not_trasncribed
just now by
Lila M
▴ 910
0
votes
0
replies
16
views
Job:
Analytical chemist (RA) for yeast natural products project at DTU Biosustain
HPLC
yeast
biochemistry
3 hours ago by
info
▴ 60
9
votes
8
replies
70
views
How to combine 2 incomplete GTF
Cufflinks
Cuffcompare
GTF
Cuffmerge
Merge
19 minutes ago by
rafaelsolersanblas
▴ 70
4
votes
3
replies
134
views
R command worked yesterday, but stalls today?
R
updated just now by
dariober
12k • written 1 day ago by
cthangav
• 0
0
votes
4
replies
131
views
Snakemake with bwa_mem2_mem unable to open the ref file and doesn' t work
bwa-mem2
conda
snakemake
pipeline
2 hours ago by
aka
• 0
3
votes
3
replies
76
views
Extract chromosome 1 - 22 fasta file
fasta
updated 5 hours ago by
shenwei356
5.8k • written 6 hours ago by
shubhamkumbhar420
• 0
0
votes
1
reply
64
views
GATK GenomicsDBImport for consolidate GVCF
GATK
GenomicsDBImport
consolidate
updated 6 hours ago by
Pierre Lindenbaum
135k • written 6 hours ago by
mscpythonstudy
• 0
0
votes
1
reply
75
views
Question about methods monitoring the change from dsDNA/RNA to ssRNA/DNA
RNA
DNA
chaser
Substrate
updated 5 hours ago by
ATpoint
48k • written 7 hours ago by
1063625819
• 0
0
votes
1
reply
79
views
SHAPEIT2 - ERROR "BAD RECOMBINATION RATE"
shapeit2
phasing
updated 5 hours ago by
4galaxy77
▴ 400 • written 9 hours ago by
GiantSilverSoy
▴ 20
0
votes
0
replies
70
views
How to download pedigree (SNP's) from cattle
pedigree
data
snp
inference
haplotype
10 hours ago by
S. Roa
• 0
0
votes
0
replies
55
views
Job:
Multiple data scientist positions in computational biomedicine
CompBiology
Bioinformatics
MachineLearning
10 hours ago by
pandey.gaurav
▴ 130
4
votes
5
replies
127
views
GSEA for RNA_seq dataset
DEGs
GSEA
RNA_seq
updated 2 hours ago by
ATpoint
48k • written 18 hours ago by
1961012
• 0
0
votes
0
replies
31
views
OMA output document error
OMA
output
document
error
11 hours ago by
Yong
• 0
4
votes
4
replies
106
views
Hunting invisible characters?
adaptor
adapter
grep
updated 12 hours ago by
seidel
7.6k • written 15 hours ago by
geneticatt
▴ 120
0
votes
0
replies
40
views
Alternative Refence Allele in PLINK2 data files
PLINK2
ALLELE
15 hours ago by
carlstat123
• 0
1
vote
3
replies
130
views
How can I Extract Transposable element from a new genome assembly?
genome
transposons
assembly
annotations
updated 4 hours ago by
lieven.sterck
11k • written 15 hours ago by
jaqx008
▴ 90
1
vote
1
reply
91
views
differential expression analysis
CRITERIA
DEGS
THRESOLD
updated 16 hours ago by
Mensur Dlakic
★ 10k • written 21 hours ago by
au.rinki.bio
▴ 10
21
votes
4
replies
2.3k
views
Tutorial:
A simple tutorial for a complex ComplexHeatmap
complexheatmap
clustering
arthritis
pam
Tutorial
updated 12 hours ago by
Rob
▴ 40 • written 11 months ago by
Kevin Blighe
72k
3
votes
2
replies
190
views
SNP's datasets and pedigreees
SNP
data
inference
haplotype
pedigrees
base
18 hours ago by
S. Roa
• 0
0
votes
3
replies
184
views
Arlequin problem (different loci number among different genotypes)
SNP
updated 19 hours ago by
lieven.sterck
11k • written 26 days ago by
wangh920
• 0
4
votes
1
reply
2.8k
views
Tool:
Clustering of short peptide sequences
peptide
clustering
phage display
Tool
updated 19 hours ago by
xiaoyuzhangh
• 0 • written 5.5 years ago by
jockbanan
▴ 390
2
votes
3
replies
99
views
X amino acid in ensembl
aminoacid
alignment
ensembl
protein
sequence
updated 16 hours ago by
Mensur Dlakic
★ 10k • written 20 hours ago by
Jason
• 0
0
votes
0
replies
32
views
Contradiction in Harzard ratio and Log fold change
Foldchange
Cancer
HR
HarzardRatio
LogFC
19 hours ago by
Mran
• 0
0
votes
11
replies
365
views
File conversion from coordinates to genes
conversion
updated 18 hours ago by
Alex Reynolds
32k • written 16 days ago by
storm1907
• 0
2
votes
1
reply
2.0k
views
Phylobayes, Tracecomp Output Interpretation
updated 20 hours ago by
Carolina Alejandra
• 0 • written 7.3 years ago by
5heikki
9.7k
0
votes
0
replies
35
views
List of codon numbers in a panel
browser
codon
list
ucsc
genome
22 hours ago by
ines
• 0
0
votes
0
replies
30
views
SECAPR issue
SECAPR
reads
trimmomatic
pipeline
alignement
22 hours ago by
Begonia_pavonina
▴ 20
1
vote
1
reply
70
views
bulk RNA-seq contamination, lung ambient RNA
mouse
bulkRNAseq
contamination
RNAseq
analysis
updated 21 hours ago by
jared.andrews07
9.3k • written 22 hours ago by
Lpak
• 0
5
votes
10
replies
163
views
6 follow
Multiqc raises the "cannot import name 'gcd' from 'fractions'" error
multiqc
linux
rna-sq
21 hours ago by
sabbirakhand25
• 0
0
votes
1
reply
68
views
Multiply BED scores by a normalization factor in precise intervals in Granges object.
R
23 hours ago by
massimofaggiani
• 0
5
votes
4
replies
97
views
Which Fasta file and GTF file to use in STAR alignment
STAR
ENSEMBL
GTF
fa
23 hours ago by
peru
• 0
7
votes
7
replies
369
views
6 follow
Forum:
R - A bioinformatic analysis programming language for NGS
bioinformatics
R
BI
NGS
10 hours ago by
guoxuantong
▴ 120
0
votes
2
replies
117
views
scRNASeq equal number of cells across conditions
scRNAseq
seurat
updated 21 hours ago by
ATpoint
48k • written 1 day ago by
TriS
★ 4.3k
2
votes
2
replies
95
views
How to verify putative miRNA
BLAST
miRNA
putative
Automate
updated 16 hours ago by
boczniak767
▴ 740 • written 1 day ago by
arcanjomjr
• 0
3
votes
3
replies
401
views
comprehensive bacterial phylogenetic tree with edge lengths for all of RefSeq or Genbank at NCBI?
refseq
ncbi
tree
phylogeny
35 minutes ago by
cmo
▴ 70
0
votes
3
replies
94
views
Mutect2 vcf.stats file missing
GATK
mutect2
vcf.stats
updated 23 hours ago by
Ram
32k • written 1 day ago by
rugarem
• 0
3
votes
7
replies
174
views
How to download via biopython (proteom or genome) individual or random organisms?
genom
proteom
updated 20 hours ago by
GenoMax
99k • written 2 days ago by
ja4123
• 0
0
votes
13
replies
255
views
Trimmomatic-0.36 not finding adapter directory
Directory
Trimmomatic
ILLUMINACLIP
updated 14 hours ago by
GenoMax
99k • written 2 days ago by
willbrown
• 0
4
votes
4
replies
168
views
How comes scRNAseq linear batch corrected data looks worst than before correction?
rescalebatches
regressbatches
singlecell
batch
19 hours ago by
Nadine
▴ 10
1
vote
15
replies
396
views
How to perform multiple alignment using MAFFT?
genome
alignment
gene
sequence
17 hours ago by
anikcropscience
▴ 40
2
votes
2
replies
136
views
Finding all instances of a recurring motif in a repeat protein
repeat
markov
alignment
motifs
10 hours ago by
NeuralCode
• 0
2
votes
5
replies
153
views
Plotting Differential Induced Genes across timepoints in DESEQ2
Bioconductor
MA
RNA-seq
DESEQ2
20 hours ago by
raisamathenge
▴ 10
1
vote
4
replies
1.1k
views
Can't change coefficient of dds object: error 'coef' should specify same coefficient as in results 'res'
DESeq2
RNA-seq
17 hours ago by
macielrodriguez2
▴ 30
64 results • Page
1 of 2
Recent Votes
Comment: How to combine 2 incomplete GTF
Answer: comprehensive bacterial phylogenetic tree with edge lengths for all of RefSeq or
Comment: How can I Extract Transposable element from a new genome assembly?
Answer: How to combine 2 incomplete GTF
Answer: How to combine 2 incomplete GTF
A: Correct Way To Parse A Fasta File In Python
How to combine 2 incomplete GTF
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Recent Awards •
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Teacher
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JC
12k
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Nicolas Rosewick
9.3k
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cmo
▴ 70
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rafaelsolersanblas
▴ 70
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Michael Dondrup
48k
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Recent Replies
Comment: How to combine 2 incomplete GTF
by
rafaelsolersanblas
▴ 70
Thank you! I am going to try it :)
Comment: How to combine 2 incomplete GTF
by
GenoMax
99k
Please create a new environment when installing packages. That avoids conflicts. conda create -c bioconda -n agat agat conda acti…
Comment: How to combine 2 incomplete GTF
by
rafaelsolersanblas
▴ 70
Hi Juke, I am trying to install it and I can't. ![enter image description here][1] [1]: /media/images/bc08978b-10f7-4666-b385-57807b…
Comment: comprehensive bacterial phylogenetic tree with edge lengths for all of RefSeq or
by
cmo
▴ 70
I agree with you, Mensur, that the GTDB is arguably more reliable and comprehensive than NCBI. However, due to the relative greater longevi…
Comment: how to select peaks at not transcribed genes
by
Lila M
▴ 910
rigth, it is a ChIP seq analysis
Comment: how to select peaks at not transcribed genes
by
ATpoint
48k
Which type data are we talking about? What was the experiment? There are literally no details in this question right now. It the assay meas…
Comment: How to combine 2 incomplete GTF
by
rafaelsolersanblas
▴ 70
Thank yo so much Juke!
Comment: MASURCA output
by
kilcdincer
▴ 10
Thank you. I understood ploidy part. My genome is supposed to belong to diploid Candida albicans. And genome size of diploid Candida alb…
Answer: How to combine 2 incomplete GTF
by
Juke34
★ 5.3k
To give more precision to the @genomax comment: `agat_sp_compare_annotations.pl` will tell you the differences. Then you can choose to …
Comment: GSEA for RNA_seq dataset
by
ATpoint
48k
No problem. I am not really familiar with what the GSEA implementation from the Broad institute does. I personally use fgsea from Bioconduc…
Comment: How to combine 2 incomplete GTF
by
rafaelsolersanblas
▴ 70
Thank you!! I will try it :)
Comment: how to select peaks at not transcribed genes
by
Lila M
▴ 910
you mean in the call peaks? And what are those 232 not annotated peaks?aren't they tss associated to not transcribed genes?
Comment: How to combine 2 incomplete GTF
by
GenoMax
99k
Compare annotation tool `agat_sp_compare_annotations.pl` from [AGAT toolkit][1]. Install [**AGAT**][2] using `conda`. [1]: https://gith…
Comment: GSEA for RNA_seq dataset
by
1961012
• 0
I am really sorry for asking for clarification because I am a beginner. I already used all genes (normalized and filtered) for GSEA using …
Comment: Snakemake with bwa_mem2_mem unable to open the ref file and doesn' t work
by
aka
• 0
I work in a research laboratory that has specific demands that make the general pipeline not fit, I have to create it from scratch, but tha…
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