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Welcome to Sequenza User Group!!
Feel free to ask questions and expose your problems/difficulties using sequenza.
Proposal and ideas are welcome as well.

Enjoy!!

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Dec 19

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Dec 19

Dec 16

seqz_binning not reducing file size with high-coverage WGS data (>150x) + segmentation fault

Hello, I'm experiencing issues with sequenza-utils on high-coverage whole-genome sequencing data

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seqz_binning not reducing file size with high-coverage WGS data (>150x) + segmentation fault

Hello, I'm experiencing issues with sequenza-utils on high-coverage whole-genome sequencing data

Dec 16

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Dec 4

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Dec 2

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Amit Goyal, … Joan Line16

Nov 29

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Nov 28

Davide Cittaro, Michael Knudsen5

May 15

Memory error (paste exceeding 2^31-1 bytes)

I have had the same issue (it happens for noisy samples), and I've located the problem to this

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Memory error (paste exceeding 2^31-1 bytes)

I have had the same issue (it happens for noisy samples), and I've located the problem to this

May 15

virginia gazziero

May 13

Errors including r-sequenza in bioconda recipe

Hi, Thanks for the package! I am currently working at the development of a nf-core pipeline, and to

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Errors including r-sequenza in bioconda recipe

Hi, Thanks for the package! I am currently working at the development of a nf-core pipeline, and to

May 13

NILESH MUKHERJEE, Francesco Favero2

Mar 19

Sequenza v4.0.0 Error/Issue Debugging help required

Hi Nilesh, I've messed up adding some optimization working only in my laptop, which uses clang to

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Sequenza v4.0.0 Error/Issue Debugging help required

Hi Nilesh, I've messed up adding some optimization working only in my laptop, which uses clang to

Mar 19

Feb 8

How to use sequenza to detect focal homozygous deletions

Hi, I am preparing to work on a project to call CNV events in a number of WES tumor -normal pairs.

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How to use sequenza to detect focal homozygous deletions

Hi, I am preparing to work on a project to call CNV events in a number of WES tumor -normal pairs.

Feb 8

Michael Knudsen2

11/28/24

Corner case bug in sequenza.results?

Hi, Quick update on this issue. I have managed to get around it by adding seg.tab <- seg.tab[seg.

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Corner case bug in sequenza.results?

Hi, Quick update on this issue. I have managed to get around it by adding seg.tab <- seg.tab[seg.

11/28/24

Tusharika Rastogi

11/11/24

Sequenza.extract ERROR

Hello, I am trying to use the sequenza.extract function to process the seqz data. I produced the seqz

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Sequenza.extract ERROR

Hello, I am trying to use the sequenza.extract function to process the seqz data. I produced the seqz

11/11/24

Fenisha Shah, favero.f...@gmail.com3

6/27/24

Installation error with the latest version of sequenza

Hello Francesco That seems to work! Thank you for your prompt response. I would like to highlight

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Installation error with the latest version of sequenza

Hello Francesco That seems to work! Thank you for your prompt response. I would like to highlight

6/27/24

6/22/24

Sequenza ERROR: Collecting GC information Error in (function (x, col_types) : unused argument (parallel = 1)

Hi I am using Sequenza to identify CNAs in tumor-normal files . A year ago I was able to generate the

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Sequenza ERROR: Collecting GC information Error in (function (x, col_types) : unused argument (parallel = 1)

Hi I am using Sequenza to identify CNAs in tumor-normal files . A year ago I was able to generate the

6/22/24

6/14/24

Unable to install sequenza on any version of R.

install.packages('sequenza') will not work after multiple tries on various distros. Any ideas

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Unable to install sequenza on any version of R.

install.packages('sequenza') will not work after multiple tries on various distros. Any ideas

6/14/24

rkendar, … Michael Knudsen6

6/12/24

Sequenza failed >100 GB RAM

Yup, it works fine. I'm running it in production without any issues. I'm using a conda

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Sequenza failed >100 GB RAM

Yup, it works fine. I'm running it in production without any issues. I'm using a conda

6/12/24

Xin Zheng, … satishkumar Ranganathan Ganakammal4

5/30/24

equenza.extract error

Hello , Did any one solve this issue ? if so please provide any insights on the same Regards, Satish

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equenza.extract error

Hello , Did any one solve this issue ? if so please provide any insights on the same Regards, Satish

5/30/24

Giorgia Gandolfi, Davide Cittaro2

5/29/24

bam2seqz only processes one chromosome

Do the two input file have the same chromosome order? I had similar issue recently and realized that

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bam2seqz only processes one chromosome

Do the two input file have the same chromosome order? I had similar issue recently and realized that

5/29/24

Michael Knudsen

5/29/24

Adjusted depth ratios before segmentation

Hi, Is it possible to make Sequenza output adjusted depth ratios at all SNP positions before

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Adjusted depth ratios before segmentation

Hi, Is it possible to make Sequenza output adjusted depth ratios at all SNP positions before

5/29/24

Jimin Hwang, Minyi2

5/13/24

gc_wiggle takes too much time

I'm having this issue as well - did you ever find a solution? On Thursday, August 17, 2023 at 8:

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gc_wiggle takes too much time

I'm having this issue as well - did you ever find a solution? On Thursday, August 17, 2023 at 8:

5/13/24

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