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13
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9
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2.2k
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News: Inviting NEW Biostars moderators to join Biostars slack channel
slack moderator
updated 4 months ago by 40k • written 5.3 years ago by 134k
13
votes
7
replies
5.4k
views
News: Free HiSeq X Ten human genome fastq test data
HiSeq-X-Ten Human-genome Fastq next-gen
updated 21 months ago by 40k • written 9.2 years ago by ★ 1.8k
13
votes
2
replies
1.3k
views
News: Thank you Biostars!
meta
updated 4 months ago by 40k • written 4.4 years ago by ▴ 140
13
votes
8
replies
2.5k
views
News: NCBI is going to eliminate GI identifiers
ncbi GI
updated 5 months ago by 40k • written 7.5 years ago by ★ 2.9k
12
votes
4
replies
1.8k
views
News: #NGSchool2018 summer school in bioinformatics
NGSchool Personalised-Medicine Nanopore
updated 4 months ago by 40k • written 5.3 years ago by ▴ 290
12
votes
3
replies
2.3k
views
News: Google Summer of Code and Open Bioinformatics Foundation is looking for students
GSoC open-source
updated 5 months ago by 40k • written 7.5 years ago by 7.9k
12
votes
8
replies
3.2k
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 7 months ago by 40k • written 10.2 years ago by 10k
12
votes
17
replies
3.6k
views
6 follow
News: A programming language for living cells [Cello]
dna sequence research language
updated 5 months ago by 40k • written 7.5 years ago by 11k
12
votes
2
replies
1.3k
views
News: Free online Ensembl course, now with a fixed sign-up link
ensembl course training
updated 5 months ago by 40k • written 6.6 years ago by 23k
12
votes
7
replies
3.6k
views
News: Welcome Ensembl REST with more endpoints!
ensembl rest-api
updated 6 months ago by 40k • written 9.0 years ago by ★ 5.2k
12
votes
0
replies
3.2k
views
News: Looking For Feedback On The Json Output For Ncbi E-Utilities
ncbi eutils
updated 7 months ago by 40k • written 10.9 years ago by ▴ 360
12
votes
8
replies
6.8k
views
News: rRNA Depletion / Poly-A Selection Responsible for RNA-seq Bias
rRNA-depletion RNA-seq-bias
updated 6 months ago by 40k • written 9.2 years ago by ▴ 640
11
votes
1
reply
2.7k
views
News: NGS Data Analysis Workshop for Beginners in Munich (full)
RNA-Seq training NGS workshop
updated 14 months ago by 40k • written 7.2 years ago by 10k
11
votes
0
replies
3.2k
views
News: BWA 0.7.11 is out, supports ALT contigs
BWA
updated 6 months ago by 40k • written 8.8 years ago by 103k
11
votes
2
replies
1.4k
views
News: ASA discusses limitations of p-values what are the alternatives?
statistics p-value
updated 5 months ago by 40k • written 7.5 years ago by 14k
11
votes
2
replies
2.2k
views
News: Ensembl 76 is out
Genome-browser Ensembl
updated 21 months ago by 40k • written 9.2 years ago by 23k
11
votes
25
replies
5.4k
views
15 follow
News: Questions for the NCBI Next Generation Sequencing Online Workshop Can be Posted with the NCBI_NOW Tag
NCBI_NOW
updated 6 months ago by 40k • written 8.0 years ago by ▴ 330
11
votes
2
replies
3.5k
views
News: Coursera: Computational Molecular Evolution
course
updated 7 months ago by 40k • written 10.4 years ago by 157k
11
votes
1
reply
2.0k
views
News: Upcoming Hands-On Workshop: De Novo Transcriptome Assembly and Analysis
Workshop Assembly RNA-Seq
updated 5 months ago by 40k • written 7.3 years ago by 10k
11
votes
1
reply
4.0k
views
News: GATB will provide developer support via Biostar
minia dsk gatb
updated 20 months ago by 40k • written 9.4 years ago by ★ 1.5k
11
votes
13
replies
2.8k
views
News: Ensembl datacentre shut-down: Friday 26th August - Tuesday 30th August 2016
Maintenance Ensembl
updated 5 months ago by 40k • written 7.1 years ago by ★ 2.3k
11
votes
11
replies
1.5k
views
8 follow
News: Python Data Visualization Course. Last 3 spots left
next-gen
updated 4 months ago by 40k • written 4.9 years ago by ★ 2.4k
10
votes
4
replies
2.5k
views
News: Ensembl 77 is out
ensembl
updated 20 months ago by 40k • written 9.0 years ago by 23k
10
votes
1
reply
3.0k
views
News: Ucsc: Dna Sequences In Web Pages Indexed By Bing.Com / Microsoft Research (All Phenotype And Literature Tracks)
web ucsc
updated 7 months ago by 40k • written 9.7 years ago by 157k
10
votes
7
replies
2.2k
views
News: Free draft copy of book on bioinformatics tools
alignment Assembly RNA-seq next-gen
updated 8 months ago by 40k • written 8.4 years ago by ★ 1.1k
10
votes
0
replies
2.0k
views
News: Pan-Cancer Analysis of RNA Binding Proteins in ~7000 tumor samples
Pan-Cancer mutations TCGA RNA-seq cancer-driver
updated 4 months ago by 40k • written 5.7 years ago by ▴ 850
10
votes
4
replies
1.6k
views
News: 3rd Berlin Summer School in NGS Data Analysis (2 seats just became available)
NGS RNA-Seq DNA-Seq
updated 4 months ago by 40k • written 4.7 years ago by 10k
10
votes
0
replies
2.8k
views
News: Cfp: Camda 2013 Challenge: Big Data In Life Sciences
ngs conference
updated 7 months ago by 40k • written 10.5 years ago by ▴ 240
10
votes
1
reply
1.9k
views
News: Run on 1st Berlin Summer School in NGS Data Analysis
DNA-Seq RNA-Seq NGS
updated 5 months ago by 40k • written 6.7 years ago by 10k
10
votes
2
replies
3.1k
views
News: Biostars based Q&A for Bioconductor: http://support.bioconductor.org
RNA-Seq bioconductor
updated 21 months ago by 40k • written 9.0 years ago by 157k
10
votes
4
replies
790
views
News: Good morning
good morning
updated 12 months ago by 98k • written 12 months ago by 86k
10
votes
17
replies
3.0k
views
7 follow
News: Tell us what you think of the ENA browser?
ena
updated 5 months ago by 40k • written 6.9 years ago by ★ 1.8k
10
votes
4
replies
986
views
News: RNA-Seq Data Analysis Workshop - Join us in Berlin, Germany from March 27-30, 2023!
NGS transcriptomics workshop
updated 6 months ago by ▴ 30 • written 7 months ago by 10k
10
votes
7
replies
2.3k
views
News: Linux for Biologists e-book (free to read online)
linux python galaxy conda virtual-machine
2.0 years ago by vimalkvn ▴ 310
10
votes
0
replies
3.3k
views
News: 1000 Genomes data on GRCh38
1000Genomes GRCh38 alts alignment
updated 13 months ago by 40k • written 8.0 years ago by ▴ 100
9
votes
9
replies
7.2k
views
News: NovaSeq quality analysis
sequencing
updated 4 months ago by 40k • written 6.3 years ago by 18k
9
votes
5
replies
10.0k
views
8 follow
News: Online course: Learn Bioinformatics in 100 hours
biostars online-course
updated 7 months ago by 40k • written 6.1 years ago by 98k
9
votes
5
replies
2.9k
views
News: The NIH Software Discovery Index | We invite your comments
NIH software-catalog
updated 20 months ago by 40k • written 9.0 years ago by 26k
9
votes
4
replies
2.1k
views
7 follow
News: fastp 0.22 released, with new FASTQ deduplication feature.
fastp
updated 9 weeks ago by 40k • written 2.1 years ago by ★ 2.4k
9
votes
5
replies
8.4k
views
News: A New Rest Based Api For Kegg: Kyoto Encyclopedia Of Genes And Genomes
kegg api
updated 7 months ago by 40k • written 10.9 years ago by ▴ 50
9
votes
4
replies
1.4k
views
News: Human Cell Atlas Data Coordination Platform Data Release Questionaire
RNA-Seq
updated 4 months ago by 40k • written 5.6 years ago by ★ 1.8k
9
votes
3
replies
3.1k
views
News: New Human Genome Assembly (Grch38) Released
human-genome assembly
updated 7 months ago by 40k • written 9.8 years ago by 157k
9
votes
4
replies
3.5k
views
News: Conference Announcement - Camda 2013
conference classification
updated 7 months ago by 40k • written 10.7 years ago by ▴ 240
9
votes
0
replies
2.1k
views
News: Commercial advertising on Biostars
meta biostars advertising
updated 6 months ago by 40k • written 9.0 years ago by 98k
9
votes
2
replies
14k
views
News: Bio-Linux 8 is now available
genome rna-seq alignment Assembly next-gen
updated 22 months ago by 40k • written 9.2 years ago by ★ 2.2k
9
votes
6
replies
1.9k
views
News: No more hidden solutions in bioinformatics
precision-medicine genome-sequencing
updated 8 months ago by 40k • written 8.4 years ago by ★ 1.2k
9
votes
5
replies
3.4k
views
News: SAMTOOLS 1.4 released
samtools
updated 4 months ago by 40k • written 6.6 years ago by 157k
9
votes
3
replies
4.6k
views
News: Bioinformatics Contest 2020. Call for problems
contest
updated 4 months ago by 40k • written 4.1 years ago by ▴ 860
8
votes
10
replies
3.7k
views
News: New versions of Minia and DSK (2.0.x)
minia dsk assembly gatb
updated 17 months ago by 40k • written 8.7 years ago by ★ 1.5k
8
votes
1
reply
3.2k
views
News: LAST DAY TO REGISTER - NGS Workshop 2015: A Practical Introduction to NGS Data Analysis (Oxford, UK)
RNA-Seq workshop
updated 6 months ago by 40k • written 8.9 years ago by 10k
1,000 results • Page 2 of 20
Recent Votes
A: .gstmp extension on .bam files downloaded from google bucket; and EOF marker is
Comment: Significance testing of top vs. random SNPs
Answer: Search RCSB with a list of protein names?
A: running RAxML and MrBayes over concatinated multiple sequence alignments
Comment: Weirdness in annotation (missing allele frequencies)
Comment: Weirdness in annotation (missing allele frequencies)
Comment: ncbi error report log for validate fastq issue
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Recent Replies
Comment: Getting the overlap between two GTF files by Alex Reynolds 35k
What would that be?
Answer: Encountering Error while Running 'make vcf' in Biostar Handbook by Tully • 0
@ialbert ,I am deeply immersed in the fog and request the help ,please
Comment: bedtools intersect by position & stand not working even with common regions by rfran010 ▴ 830
are you sure bedtools can handle the non-standard location of strand information?
Answer: Getting the overlap between two GTF files by rfran010 ▴ 830
Maybe somebody knows something I don't, but I feel like bedtools should be able to handle your gtf files directly. If it's not done alre…
Answer: vcf.gz to vcf by Mark ★ 1.3k
As the error says, the file is not compressed. In linux the file extension is essentially optional. The file could be named `my.vcf.txt` ye…
Answer: Search RCSB with a list of protein names? by Jiyao Wang ▴ 340
You can use NCBI esearch to search the protein names against the structure database to get the PDB IDs, then retrieve the structures.
Answer: How to get ncol = nrow? by Mark ★ 1.3k
Without your actual data, it's hard to assist. I think what you're asking is 'how do I rename the rows of my dataframe(s)'. Taking the …
Comment: MAKER: WARNING: Could not get initialization lock. Trying Again... by GenoMax 134k
What kind of hardware are you running this on? You need to have the right kind of hardware (multiple CPU's not just cores), MPI libraries a…
Answer: Getting the overlap between two GTF files by Alex Reynolds 35k
Using `bedops --intersect` and `gtf2bed` will get their common genomic space: ``` bedops --intersect <(gtf2bed < transcripts.gtf) <(gtf2be…
Comment: Encountering Error while Running 'make vcf' in Biostar Handbook by Tully • 0
```bash # Obtain the makefile curl -s http://data.biostarhandbook.com/make/snpcall.mk > Makefile # Run the makefile make vcf ``` Error me…
Comment: Encountering Error while Running 'make vcf' in Biostar Handbook by Tully • 0
> System Information: Ubuntu 22.04 (WSL2) > > Shell: zsh > > Installation Verification: Yes, doctor.py OK [1]: https://www.biostarhand…
Comment: Retrieve The Reads And Fastq From Bam File by Reem • 0
Did it affect the bamtofastq output file? if so how did you solve the problem? Thanks
Answer: How to import bigwig files into igvR by Trivas ★ 1.5k
You could try seeing if this fixes your issue with rtracklayer: https://support.bioconductor.org/p/p133244/
Comment: Weirdness in annotation (missing allele frequencies) by Jeremy Leipzig 21k
0.60625 is 97/160 so if you have 80 individuals in your VCF that's an internal allele frequency, not gnomAD
Comment: Weirdness in annotation (missing allele frequencies) by Can Abdullah • 0
Yes, I was confused as well. I think the same. Maybe Annovar uses some other resources besides gnomad, but it does not make sense. Also, I …
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