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1,000 results • Page
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13
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7
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5.8k
views
News:
Free HiSeq X Ten human genome fastq test data
HiSeq-X-Ten
Human-genome
Fastq
next-gen
updated 2.4 years ago by
Ram
43k • written 9.8 years ago by
rbagnall
★ 1.8k
13
votes
2
replies
3.1k
views
News:
A Summary Of All Encode Related News On The Openhelix Blog: Encode Floods The News
encode
updated 14 months ago by
Ram
43k • written 11.7 years ago by
Istvan Albert
100k
13
votes
2
replies
1.5k
views
News:
Thank you Biostars!
meta
updated 11 months ago by
Ram
43k • written 5.0 years ago by
Glory Basumata
▴ 140
13
votes
9
replies
2.7k
views
7 follow
News:
Inviting NEW Biostars moderators to join Biostars slack channel
slack
moderator
7 months ago by
GenoMax
142k
12
votes
0
replies
3.3k
views
News:
Looking For Feedback On The Json Output For Ncbi E-Utilities
ncbi
eutils
updated 14 months ago by
Ram
43k • written 11.5 years ago by
Chris Maloney
▴ 360
12
votes
2
replies
1.5k
views
News:
Free online Ensembl course, now with a fixed sign-up link
ensembl
course
training
updated 13 months ago by
Ram
43k • written 7.2 years ago by
Emily
23k
12
votes
8
replies
3.5k
views
News:
'Potential Rna-Dna Binding Site In Alu Repeat', Or 'Why Should I Allow Multiple Mapping Positions When Analyzing Chipseq Data?'
chipseq
rna
updated 14 months ago by
Ram
43k • written 10.9 years ago by
David Langenberger
11k
12
votes
2
replies
511
views
News:
8th Berlin Summer School in NGS Data Analysis (June 10-14, 2024) - already half booked
Workshop
RNA-Seq
DNA-Seq
Illumina
5 weeks ago by
David Langenberger
11k
12
votes
4
replies
2.1k
views
News:
#NGSchool2018 summer school in bioinformatics
NGSchool
Personalised-Medicine
Nanopore
updated 11 months ago by
Ram
43k • written 6.0 years ago by
kzkedzierska
▴ 290
12
votes
17
replies
4.2k
views
6 follow
News:
A programming language for living cells [Cello]
dna
sequence
research
language
updated 13 months ago by
Ram
43k • written 8.1 years ago by
Sukhi Singh
11k
12
votes
3
replies
2.5k
views
News:
Google Summer of Code and Open Bioinformatics Foundation is looking for students
GSoC
open-source
updated 13 months ago by
Ram
43k • written 8.2 years ago by
Philipp Bayer
8.5k
12
votes
8
replies
7.2k
views
News:
rRNA Depletion / Poly-A Selection Responsible for RNA-seq Bias
rRNA-depletion
RNA-seq-bias
updated 14 months ago by
Ram
43k • written 9.9 years ago by
support
▴ 650
12
votes
7
replies
3.9k
views
News:
Welcome Ensembl REST with more endpoints!
ensembl
rest-api
updated 14 months ago by
Ram
43k • written 9.6 years ago by
Denise CS
★ 5.2k
11
votes
1
reply
2.1k
views
News:
Upcoming Hands-On Workshop: De Novo Transcriptome Assembly and Analysis
Workshop
Assembly
RNA-Seq
updated 13 months ago by
Ram
43k • written 8.0 years ago by
David Langenberger
11k
11
votes
0
replies
3.3k
views
News:
BWA 0.7.11 is out, supports ALT contigs
BWA
updated 14 months ago by
Ram
43k • written 9.4 years ago by
Devon Ryan
104k
11
votes
2
replies
1.5k
views
News:
ASA discusses limitations of p-values what are the alternatives?
statistics
p-value
updated 13 months ago by
Ram
43k • written 8.2 years ago by
dariober
14k
11
votes
9
replies
7.8k
views
News:
NovaSeq quality analysis
sequencing
updated 12 months ago by
Ram
43k • written 6.9 years ago by
Brian Bushnell
20k
11
votes
13
replies
3.2k
views
News:
Ensembl datacentre shut-down: Friday 26th August - Tuesday 30th August 2016
Maintenance
Ensembl
updated 13 months ago by
Ram
43k • written 7.7 years ago by
Ben_Ensembl
★ 2.4k
11
votes
25
replies
6.3k
views
15 follow
News:
Questions for the NCBI Next Generation Sequencing Online Workshop Can be Posted with the NCBI_NOW Tag
NCBI_NOW
updated 13 months ago by
Ram
43k • written 8.6 years ago by
DCGenomics
▴ 330
11
votes
11
replies
1.8k
views
8 follow
News:
Python Data Visualization Course. Last 3 spots left
next-gen
updated 11 months ago by
Ram
43k • written 5.5 years ago by
carlopecoraro2
★ 2.5k
11
votes
1
reply
4.2k
views
News:
GATB will provide developer support via Biostar
minia
dsk
gatb
updated 2.3 years ago by
Ram
43k • written 10.0 years ago by
Rayan Chikhi
★ 1.5k
11
votes
1
reply
2.9k
views
News:
NGS Data Analysis Workshop for Beginners in Munich (full)
RNA-Seq
training
NGS
workshop
updated 22 months ago by
Ram
43k • written 7.8 years ago by
David Langenberger
11k
11
votes
2
replies
3.7k
views
News:
Coursera: Computational Molecular Evolution
course
updated 14 months ago by
Ram
43k • written 11.0 years ago by
Pierre Lindenbaum
161k
11
votes
2
replies
2.4k
views
News:
Ensembl 76 is out
Genome-browser
Ensembl
updated 2.4 years ago by
Ram
43k • written 9.8 years ago by
Emily
23k
10
votes
17
replies
3.4k
views
7 follow
News:
Tell us what you think of the ENA browser?
ena
updated 13 months ago by
Ram
43k • written 7.5 years ago by
Laura
★ 1.8k
10
votes
4
replies
1.0k
views
News:
Good morning
good
morning
updated 20 months ago by
Istvan Albert
100k • written 20 months ago by
Kevin Blighe
88k
10
votes
0
replies
3.4k
views
News:
1000 Genomes data on GRCh38
1000Genomes
GRCh38
alts
alignment
updated 20 months ago by
Ram
43k • written 8.6 years ago by
fairley
▴ 100
10
votes
1
reply
2.0k
views
News:
Run on 1st Berlin Summer School in NGS Data Analysis
DNA-Seq
RNA-Seq
NGS
updated 13 months ago by
Ram
43k • written 7.3 years ago by
David Langenberger
11k
10
votes
2
replies
3.3k
views
News:
Biostars based Q&A for Bioconductor: http://support.bioconductor.org
RNA-Seq
bioconductor
updated 2.4 years ago by
Ram
43k • written 9.7 years ago by
Pierre Lindenbaum
161k
10
votes
4
replies
1.8k
views
News:
3rd Berlin Summer School in NGS Data Analysis (2 seats just became available)
NGS
RNA-Seq
DNA-Seq
updated 11 months ago by
Ram
43k • written 5.3 years ago by
David Langenberger
11k
10
votes
7
replies
2.4k
views
News:
Free draft copy of book on bioinformatics tools
alignment
Assembly
RNA-seq
next-gen
updated 16 months ago by
Ram
43k • written 9.0 years ago by
ugly.betty77
★ 1.1k
10
votes
7
replies
2.9k
views
News:
Linux for Biologists e-book (free to read online)
linux
python
galaxy
conda
virtual-machine
2.6 years ago by
vimalkvn
▴ 320
10
votes
1
reply
3.1k
views
News:
Ucsc: Dna Sequences In Web Pages Indexed By Bing.Com / Microsoft Research (All Phenotype And Literature Tracks)
web
ucsc
updated 14 months ago by
Ram
43k • written 10.3 years ago by
Pierre Lindenbaum
161k
10
votes
4
replies
1.3k
views
News:
RNA-Seq Data Analysis Workshop - Join us in Berlin, Germany from March 27-30, 2023!
NGS
transcriptomics
workshop
updated 14 months ago by
kng
▴ 30 • written 15 months ago by
David Langenberger
11k
10
votes
0
replies
2.9k
views
News:
Cfp: Camda 2013 Challenge: Big Data In Life Sciences
ngs
conference
updated 14 months ago by
Ram
43k • written 11.2 years ago by
okko.clevert
▴ 240
10
votes
4
replies
2.7k
views
News:
Ensembl 77 is out
ensembl
updated 2.3 years ago by
Ram
43k • written 9.6 years ago by
Emily
23k
10
votes
0
replies
2.1k
views
News:
Pan-Cancer Analysis of RNA Binding Proteins in ~7000 tumor samples
Pan-Cancer
mutations
TCGA
RNA-seq
cancer-driver
updated 12 months ago by
Ram
43k • written 6.3 years ago by
lsp03yjh
▴ 860
9
votes
0
replies
2.2k
views
News:
Commercial advertising on Biostars
meta
biostars
advertising
updated 14 months ago by
Ram
43k • written 9.6 years ago by
Istvan Albert
100k
9
votes
3
replies
3.3k
views
News:
New Human Genome Assembly (Grch38) Released
human-genome
assembly
updated 14 months ago by
Ram
43k • written 10.4 years ago by
Pierre Lindenbaum
161k
9
votes
5
replies
8.8k
views
News:
A New Rest Based Api For Kegg: Kyoto Encyclopedia Of Genes And Genomes
kegg
api
updated 14 months ago by
Ram
43k • written 11.5 years ago by
wchknudt
▴ 50
9
votes
5
replies
3.7k
views
News:
SAMTOOLS 1.4 released
samtools
updated 12 months ago by
Ram
43k • written 7.2 years ago by
Pierre Lindenbaum
161k
9
votes
4
replies
3.7k
views
News:
Conference Announcement - Camda 2013
conference
classification
updated 14 months ago by
Ram
43k • written 11.4 years ago by
okko.clevert
▴ 240
9
votes
4
replies
2.5k
views
7 follow
News:
fastp 0.22 released, with new FASTQ deduplication feature.
fastp
updated 9 months ago by
Ram
43k • written 2.7 years ago by
chen
★ 2.5k
9
votes
3
replies
4.8k
views
News:
Bioinformatics Contest 2020. Call for problems
contest
updated 11 months ago by
Ram
43k • written 4.7 years ago by
alserg
▴ 930
9
votes
5
replies
3.1k
views
News:
The NIH Software Discovery Index | We invite your comments
NIH
software-catalog
updated 2.3 years ago by
Ram
43k • written 9.6 years ago by
Sean Davis
26k
9
votes
2
replies
14k
views
News:
Bio-Linux 8 is now available
genome
rna-seq
alignment
Assembly
next-gen
updated 2.4 years ago by
Ram
43k • written 9.8 years ago by
rtliu
★ 2.2k
9
votes
6
replies
2.2k
views
News:
No more hidden solutions in bioinformatics
precision-medicine
genome-sequencing
updated 16 months ago by
Ram
43k • written 9.0 years ago by
HG
★ 1.2k
9
votes
4
replies
1.6k
views
News:
Human Cell Atlas Data Coordination Platform Data Release Questionaire
RNA-Seq
updated 12 months ago by
Ram
43k • written 6.2 years ago by
Laura
★ 1.8k
9
votes
5
replies
10k
views
8 follow
News:
Online course: Learn Bioinformatics in 100 hours
biostars
online-course
updated 15 months ago by
Ram
43k • written 6.7 years ago by
Istvan Albert
100k
8
votes
0
replies
1.3k
views
News:
Final Call - Hands-On RNA-Seq Data Analysis Workshop - only 2 seats left
data-analysis
RNA-Seq
workshop
updated 11 months ago by
Ram
43k • written 4.9 years ago by
David Langenberger
11k
1,000 results • Page
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Recent Votes
Comment: In one PCA plot, can I calculate the percentage of different factors that contri
Answer: In one PCA plot, can I calculate the percentage of different factors that contri
Answer: In one PCA plot, can I calculate the percentage of different factors that contri
Answer: Details on salmon index
Answer: Generating consensus sequence from bam file
Answer: Short Read Data Genome Assembly
Comment: API kegg - IndexError: list index out of range
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Comment: zero TPM for many gene including housekeeping when using kallisto
by
ATpoint
82k
Yes, but this is what I am saying: GAPDH in human has at least 6 annotated transcripts. Have you looked at all of them? Maybe that particul…
Comment: zero TPM for many gene including housekeeping when using kallisto
by
ashkan
▴ 160
@atpoint these are from PBMC. no they are different genes. for example ENST00000229239.10 is GAPDH. in STAR I got a lot of reads aligned …
Comment: zero TPM for many gene including housekeeping when using kallisto
by
ashkan
▴ 160
@dariober: I have to use kallisto for our downstream pipeline.
Comment: zero TPM for many gene including housekeeping when using kallisto
by
ATpoint
82k
Which celltype is this? Are these transcripts of the same gene, and of which gene?
Comment: zero TPM for many gene including housekeeping when using kallisto
by
ashkan
▴ 160
@atpoint the question is updated. the first command shows how the index is built.
Comment: Help! Reconstruction of locus, order contigs
by
dthorbur
★ 2.0k
Is the *de novo* annotation required for each contig? Reconstructing homologous regions in many genomes can be tricky regardless, but is es…
Comment: In one PCA plot, can I calculate the percentage of different factors that contri
by
diqixiaoyaoer
▴ 20
You can have a look on my answer. I have post it below.
Answer: In one PCA plot, can I calculate the percentage of different factors that contri
by
diqixiaoyaoer
▴ 20
Here is my script that can be used to calculate how much degree that different factors contribute to PCA variance (PC1 and PC2). # …
Comment: Details on salmon index
by
Lorenzo
• 0
Thank you so much for the beautiful explanation. Just one more curiosity. So in the first versions Salmon utilized RapMap to index and then…
Comment: What marks a De-Novo Genome assembly as FAILED?
by
dthorbur
★ 2.0k
I'm a little confused about your experimental design. Are you making 45 different assemblies? Or are all the samples from the same individu…
Comment: zero TPM for many gene including housekeeping when using kallisto
by
ATpoint
82k
You should be stating how you constructed the index, and include the actual lines for the problematic genes from the abundance files. Note …
Comment: zero TPM for many gene including housekeeping when using kallisto
by
dariober
14k
You could try [salmon](https://combine-lab.github.io/salmon/getting_started/) to see if the problem is with kallisto or with the pseudo-ali…
Comment: solution-Transcriptome.cpp:18:Transcriptome: exiting because of *INPUT FILE* err
by
GenoMax
142k
> INPUT FILE error: could not open input file /geneInfo.tab Based on the error it appears that the input file you are providing could not …
Answer: How to handle duplicated genes in TCGA data?
by
txema.heredia
▴ 130
Having duplicate gene symbols is pretty common. Why do you need to work with gene symbols? To compare them to external datasets? Or just fo…
Comment: Merge clusters in Seurat UMAP
by
kilcdincer
▴ 10
It did not help either. But I got the answer [here][1] Thank you! [1]: https://github.com/satijalab/seurat/issues/8902
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