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126 results • Page
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Herald:
The Biostar Herald for Monday, May 13, 2024
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3 days ago by
Biostar
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The Biostar Herald for Monday, May 06, 2024
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10 days ago by
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The Biostar Herald for Monday, April 29, 2024
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18 days ago by
Biostar
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The Biostar Herald for Tuesday, April 23, 2024
herald
updated 23 days ago by
Pierre Lindenbaum
161k • written 23 days ago by
Biostar
2.8k
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Herald:
The Biostar Herald for Monday, April 15, 2024
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Biostar
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196
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The Biostar Herald for Tuesday, April 09, 2024
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Biostar
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213
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The Biostar Herald for Wednesday, April 03, 2024
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234
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The Biostar Herald for Monday, March 25, 2024
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Biostar
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237
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The Biostar Herald for Monday, March 11, 2024
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The Biostar Herald for Monday, February 26, 2024
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11 weeks ago by
Biostar
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The Biostar Herald for Tuesday, February 20, 2024
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The Biostar Herald for Monday, January 15, 2024
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The Biostar Herald for Monday, January 08, 2024
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Biostar
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Herald:
The Biostar Herald for Tuesday, December 19, 2023
herald
updated 4 months ago by
cmdcolin
★ 3.8k • written 4 months ago by
Biostar
2.8k
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382
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Herald:
The Biostar Herald for Monday, December 11, 2023
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5 months ago by
Biostar
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386
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The Biostar Herald for Monday, December 04, 2023
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389
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The Biostar Herald for Monday, November 27, 2023
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429
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416
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The Biostar Herald for Monday, November 13, 2023
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444
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461
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The Biostar Herald for Monday, October 30, 2023
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Biostar
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501
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The Biostar Herald for Monday, October 23, 2023
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Biostar
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464
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The Biostar Herald for Monday, October 16, 2023
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Biostar
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576
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Herald:
The Biostar Herald for Monday, October 09, 2023
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Biostar
2.8k
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519
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The Biostar Herald for Tuesday, September 26, 2023
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Biostar
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563
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The Biostar Herald for Wednesday, September 20, 2023
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Biostar
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511
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The Biostar Herald for Wednesday, September 06, 2023
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8 months ago by
Biostar
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765
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Herald:
The Biostar Herald for Monday, August 28, 2023
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updated 8 months ago by
Jesse
▴ 770 • written 8 months ago by
Biostar
2.8k
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621
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Herald:
The Biostar Herald for Thursday, August 24, 2023
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8 months ago by
Biostar
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698
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The Biostar Herald for Wednesday, August 09, 2023
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9 months ago by
Biostar
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808
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Herald:
The Biostar Herald for Wednesday, August 02, 2023
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9 months ago by
Biostar
2.8k
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1.1k
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Herald:
The Biostar Herald for Thursday, June 15, 2023
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11 months ago by
Biostar
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780
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Herald:
The Biostar Herald for Monday, June 05, 2023
herald
11 months ago by
Biostar
2.8k
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847
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Herald:
The Biostar Herald for Tuesday, May 23, 2023
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11 months ago by
Biostar
2.8k
3
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842
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Herald:
The Biostar Herald for Thursday, May 11, 2023
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12 months ago by
Biostar
2.8k
5
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841
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Herald:
The Biostar Herald for Monday, May 01, 2023
herald
updated 12 months ago by
cmdcolin
★ 3.8k • written 12 months ago by
Biostar
2.8k
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733
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Herald:
The Biostar Herald for Monday, April 24, 2023
herald
12 months ago by
Biostar
2.8k
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718
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Herald:
The Biostar Herald for Monday, April 17, 2023
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13 months ago by
Biostar
2.8k
3
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755
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Herald:
The Biostar Herald for Monday, April 10, 2023
herald
13 months ago by
Biostar
2.8k
5
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660
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Herald:
The Biostar Herald for Monday, April 03, 2023
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13 months ago by
Biostar
2.8k
2
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647
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Herald:
The Biostar Herald for Tuesday, March 28, 2023
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13 months ago by
Biostar
2.8k
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711
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Herald:
The Biostar Herald for Monday, March 13, 2023
herald
14 months ago by
Biostar
2.8k
2
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673
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Herald:
The Biostar Herald for Tuesday, February 28, 2023
herald
14 months ago by
Biostar
2.8k
2
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700
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The Biostar Herald for Monday, February 20, 2023
herald
15 months ago by
Biostar
2.8k
1
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727
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Herald:
The Biostar Herald for Wednesday, February 15, 2023
herald
15 months ago by
Biostar
2.8k
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709
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Herald:
The Biostar Herald for Monday, February 06, 2023
herald
15 months ago by
Biostar
2.8k
3
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634
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Herald:
The Biostar Herald for Monday, January 30, 2023
herald
15 months ago by
Biostar
2.8k
126 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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Recent Replies
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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