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73 results • Page
1 of 2
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0
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Job:
Multiple data scientist positions in computational biomedicine
CompBiology
Bioinformatics
MachineLearning
26 minutes ago by
pandey.gaurav
▴ 130
2
votes
3
replies
70
views
GSEA for RNA_seq dataset
DEGs
GSEA
RNA_seq
updated 31 minutes ago by
Zhilong Jia
★ 1.7k • written 7 hours ago by
1961012
• 0
0
votes
0
replies
4
views
OMA output document error
OMA
output
document
error
1 hour ago by
Yong
• 0
4
votes
4
replies
74
views
Hunting invisible characters?
adaptor
adapter
grep
updated 2 hours ago by
seidel
7.6k • written 5 hours ago by
geneticatt
▴ 120
0
votes
0
replies
29
views
Alternative Refence Allele in PLINK2 data files
PLINK2
ALLELE
5 hours ago by
carlstat123
• 0
0
votes
2
replies
59
views
How can I Extract Transposable element from a new genome assembly?
genome
transposons
assembly
annotations
updated 1 hour ago by
Philipp Bayer
6.9k • written 5 hours ago by
jaqx008
▴ 90
1
vote
1
reply
78
views
differential expression analysis
CRITERIA
DEGS
THRESOLD
updated 6 hours ago by
Mensur Dlakic
★ 10k • written 10 hours ago by
au.rinki.bio
▴ 10
21
votes
4
replies
2.2k
views
Tutorial:
A simple tutorial for a complex ComplexHeatmap
complexheatmap
clustering
arthritis
pam
Tutorial
updated 2 hours ago by
Rob
▴ 40 • written 11 months ago by
Kevin Blighe
72k
3
votes
2
replies
185
views
SNP's datasets and pedigreees
SNP
data
inference
haplotype
pedigrees
base
7 hours ago by
S. Roa
• 0
0
votes
3
replies
177
views
Arlequin problem (different loci number among different genotypes)
SNP
updated 8 hours ago by
lieven.sterck
10k • 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 9 hours ago by
xiaoyuzhangh
• 0 • written 5.5 years ago by
jockbanan
▴ 390
1
vote
3
replies
85
views
X amino acid in ensembl
aminoacid
alignment
ensembl
protein
sequence
updated 6 hours ago by
Mensur Dlakic
★ 10k • written 10 hours ago by
Jason
• 0
0
votes
0
replies
27
views
Contradiction in Harzard ratio and Log fold change
Foldchange
Cancer
HR
HarzardRatio
LogFC
9 hours ago by
Mran
• 0
0
votes
11
replies
355
views
File conversion from coordinates to genes
conversion
updated 8 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 10 hours ago by
Carolina Alejandra
• 0 • written 7.3 years ago by
5heikki
9.7k
0
votes
0
replies
31
views
List of codon numbers in a panel
browser
codon
list
ucsc
genome
12 hours ago by
ines
• 0
0
votes
0
replies
27
views
SECAPR issue
SECAPR
reads
trimmomatic
pipeline
alignement
12 hours ago by
Begonia_pavonina
▴ 20
0
votes
1
reply
59
views
bulk RNA-seq contamination, lung ambient RNA
mouse
bulkRNAseq
contamination
RNAseq
analysis
updated 11 hours ago by
jared.andrews07
9.2k • written 12 hours ago by
Lpak
• 0
5
votes
10
replies
150
views
6 follow
Multiqc raises the "cannot import name 'gcd' from 'fractions'" error
multiqc
linux
rna-sq
11 hours ago by
sabbirakhand25
• 0
0
votes
1
reply
63
views
Multiply BED scores by a normalization factor in precise intervals in Granges object.
R
12 hours ago by
massimofaggiani
• 0
4
votes
4
replies
89
views
Which Fasta file and GTF file to use in STAR alignment
STAR
ENSEMBL
GTF
fa
12 hours ago by
peru
• 0
0
votes
0
replies
25
views
how to combined peak score or other quantitative indicator when identify TF target gene
ChIP-Seq
14 hours ago by
shangguandong1996
▴ 10
2
votes
2
replies
90
views
How to set variant FILTER in a VCF file based on overlap with regions in a BED file
annotation
bed
vcf
14 hours ago by
William
★ 4.8k
7
votes
6
replies
293
views
6 follow
Forum:
R - A bioinformatic analysis programming language for NGS
NGS
R
BI
bioinformatics
13 minutes ago by
guoxuantong
▴ 120
2
votes
6
replies
115
views
Meaning letters in TCGA sample barcode field
GDC
Barcode
TCGA
17 hours ago by
sumitguptabt
• 0
1
vote
0
replies
40
views
Methylation frequency + and - strand
methylation
Bismark
17 hours ago by
Palgrave
▴ 30
0
votes
0
replies
34
views
Error : Fail to open file file.vcf for normalization with vt
normalization
vt
vcf
17 hours ago by
Sar
• 0
0
votes
2
replies
85
views
Salmon Script Troubleshooting for RNA Seq Data
NextGenerationSequencing
RNAseq
Bash
Slurm
Salmon
updated 17 hours ago by
ATpoint
48k • written 1 day ago by
makylakb
• 0
0
votes
0
replies
55
views
Adjusting for the effect of other variables for DGEA in EdgeR
RNASeq
edgeR
DGEA
17 hours ago by
emilien.hourquet
• 0
1
vote
1
reply
61
views
Normalisation before edgeR for RNA-Seq
rna-seq
edgeR
updated 18 hours ago by
ATpoint
48k • written 18 hours ago by
ZheFrench
▴ 320
0
votes
1
reply
49
views
MASURCA output
masurca
updated 13 hours ago by
Carambakaracho
★ 2.4k • written 18 hours ago by
kilcdincer
▴ 10
0
votes
3
replies
75
views
short length amino acids
short
amino
acids
alignment
length
updated 16 hours ago by
GenoMax
99k • written 18 hours ago by
desptsp
• 0
0
votes
1
reply
238
views
comparing enriched GO terms between species
RNA-Seq
go
annotation
updated 18 hours ago by
babalyigit
• 0 • written 9 months ago by
martinaweil
• 0
2
votes
4
replies
214
views
MASURCA error for multiple entries
masurca
updated 16 hours ago by
Kevin Blighe
72k • written 6 days ago by
kilcdincer
▴ 10
0
votes
0
replies
31
views
Including ambiguous samples in DGE as sensitivity analysis
Sensitivity
Limma
DGE
18 hours ago by
mdrnao
• 0
4
votes
11
replies
177
views
Download all Bacteria accession list from NCBI
number
accession
NCBI
13 hours ago by
K.Gee
▴ 40
0
votes
0
replies
50
views
Correlation test based on position sliding window for multiple variables
statistics
R
corr.test
17 hours ago by
User000
▴ 440
0
votes
1
reply
54
views
Precision of variant calling (INDELs)
INDELs
hap.py
updated 16 hours ago by
desouzareis.r
▴ 220 • written 19 hours ago by
esimonova.me
▴ 10
0
votes
0
replies
37
views
DEG list turn into keggscape
Cytoscape
RNA-Sequencing
20 hours ago by
ashwing.kofficial
• 0
0
votes
0
replies
68
views
How can I slicing to RS4 type in rpy2?
rpy2
slicing
rs4
rpy
21 hours ago by
dxodnd
• 0
0
votes
0
replies
71
views
Trycycler Assembly_Issue in Flye and MInimap2
Flye
minimap2
Trycycler
21 hours ago by
Shiv_2
• 0
0
votes
1
reply
90
views
Combining results tables to plot automatecally
DESeq2
updated 21 hours ago by
swbarnes2
9.7k • written 22 hours ago by
hydrobeanz
• 0
1
vote
1
reply
99
views
R command worked yesterday, but stalls today?
R
updated 21 hours ago by
Mensur Dlakic
★ 10k • written 22 hours ago by
cthangav
• 0
0
votes
0
replies
70
views
Cytoscape: Advice on best analysis methods for PPI network
ontology
network
gene
PPI
cytoscape
21 hours ago by
Haley
• 0
0
votes
2
replies
114
views
scRNASeq equal number of cells across conditions
scRNAseq
seurat
updated 11 hours ago by
ATpoint
48k • written 22 hours ago by
TriS
★ 4.3k
2
votes
2
replies
88
views
How to verify putative miRNA
BLAST
miRNA
putative
Automate
updated 6 hours ago by
boczniak767
▴ 740 • written 1 day ago by
arcanjomjr
• 0
1
vote
2
replies
88
views
Extract unmapped reads as pairs from (S/B)AM and create corresponding split read files.
bam
sam
unmapped
paired
fastq
20 hours ago by
jens
▴ 20
0
votes
3
replies
91
views
Mutect2 vcf.stats file missing
GATK
mutect2
vcf.stats
updated 12 hours ago by
Ram
32k • written 1 day ago by
rugarem
• 0
3
votes
7
replies
167
views
How to download via biopython (proteom or genome) individual or random organisms?
genom
proteom
updated 9 hours ago by
GenoMax
99k • written 1 day ago by
ja4123
• 0
1
vote
1
reply
69
views
1000 genomes project reference panel - GRCh38
GRCh38
build38
1KG
reference_panel
updated 17 hours ago by
4galaxy77
▴ 400 • written 1 day ago by
GiantSilverSoy
▴ 20
73 results • Page
1 of 2
Recent Votes
Comment: R - A bioinformatic analysis programming language for NGS
Answer: Finding all instances of a recurring motif in a repeat protein
Answer: Hunting invisible characters?
Comment: Genotype Data in PLINK
Comment: Hunting invisible characters?
Comment: Hunting invisible characters?
Comment: A simple tutorial for a complex ComplexHeatmap
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Recent Awards •
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Popular Question
to
nilus1432
▴ 30
Teacher
to
igor
12k
Popular Question
to
pandey.gaurav
▴ 130
Teacher
to
Philipp Bayer
6.9k
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TriS
★ 4.3k
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Sam
★ 3.5k
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Alex Reynolds
32k
Recent Replies
Comment: Finding all instances of a recurring motif in a repeat protein
by
NeuralCode
• 0
Thanks so much! HMMer is great. Now pulling out hundreds of instances of this domain for my big alignment.
Answer: GSEA for RNA_seq dataset
by
Zhilong Jia
★ 1.7k
Using all genes with signed P-value to rank genes, where the sign is from LogFC. and `GSEAPreranked` module in GSEA. ref: [Gene Ranki…
Comment: How can I Extract Transposable element from a new genome assembly?
by
Philipp Bayer
6.9k
if you can transform the bed to gff (galaxy has tools for that), you could also use liftoff which wraps all of this in a pipeline https://g…
Comment: A simple tutorial for a complex ComplexHeatmap
by
Rob
▴ 40
Great! Thank you ATpoint
Comment: Hunting invisible characters?
by
seidel
7.6k
Another way to see hidden characters is to pipe them through octal dump: `cat infile | od -c` this will print out hidden characters, newlin…
Comment: How can I Extract Transposable element from a new genome assembly?
by
GenoMax
99k
Align your assemblies to each other using an aligner like `lastz` ([**LINK**][1]). You could also use `blat` if you are sure the assemblies…
Comment: Trimmomatic-0.36 not finding adapter directory
by
GenoMax
99k
It is going to take as long as it takes. You need to be patient and wait until the prompt returns. Based on speed of your CPU/disk things c…
Comment: Hunting invisible characters?
by
GenoMax
99k
You could have looked at the file using `cat -vet` which would have shown all characters in the file. Printable and non.
Comment: Can't count features with featurecount
by
avelarbio46
▴ 10
I'm not sure about three things: What does -M and -O do exactly that could benefit in my case? Why should I specify -t if I don't necessa…
Comment: Hunting invisible characters?
by
geneticatt
▴ 120
Thank you, using `dos2unix` worked perfectly!
Answer: Hunting invisible characters?
by
Mensur Dlakic
★ 10k
You may want to read [**this**][1]. I think you may be able to fix your adaper file by typing: dos2unix i5R.txt If an error pops …
Comment: RNA seq analysis; two samples
by
Ram
32k
Please do not delete posts that have comments/answers.
Comment: ICE normalization using JuicerTools
by
sckinta
▴ 610
Is there a way to extract ICE bias from balanced .cool file? I know that you can find weight associated with each bin by `cooler dump --bal…
Comment: How to verify putative miRNA
by
boczniak767
▴ 740
Yeah, miRNA could be only verified in wet-lab. Take a look at [stem-loop PCR][1]. I've used it and it works really well. [1]: https://j…
Comment: R - A bioinformatic analysis programming language for NGS
by
Ram
32k
Because this is a plain copy-paste from the novogene page, it has numbers (pointers to specific references that the source has), but not th…
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