Ecosyste.ms: Issues

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GitHub / seqan/igenvar issues and pull requests

#51 - [FEATURE] Decouple junctions and a cluster of junctions

Issue - State: closed - Opened by Irallia almost 4 years ago - 2 comments

#51 - [FEATURE] Decouple junctions and a cluster of junctions

Issue - State: closed - Opened by Irallia almost 4 years ago - 2 comments

#50 - [FEATURE] modularisation refining breakends

Pull Request - State: closed - Opened by Irallia almost 4 years ago - 1 comment

#50 - [FEATURE] modularisation refining breakends

Pull Request - State: closed - Opened by Irallia almost 4 years ago - 1 comment

#49 - [FEATURE] Modularisation clustering

Pull Request - State: closed - Opened by Irallia almost 4 years ago - 1 comment

#49 - [FEATURE] Modularisation clustering

Pull Request - State: closed - Opened by Irallia almost 4 years ago - 1 comment

#48 - Tests don't compile on MacOS 11.1 (Big Sur)

Issue - State: closed - Opened by eldariont almost 4 years ago - 13 comments

#48 - Tests don't compile on MacOS 11.1 (Big Sur)

Issue - State: closed - Opened by eldariont almost 4 years ago - 13 comments

#47 - [TEST] Add mini example plus tests

Pull Request - State: closed - Opened by Irallia almost 4 years ago - 5 comments

#47 - [TEST] Add mini example plus tests

Pull Request - State: closed - Opened by Irallia almost 4 years ago - 5 comments

#46 - Add a skeleton VCF parser which can print variants in VCF output.

Pull Request - State: closed - Opened by joshuak94 almost 4 years ago

#46 - Add a skeleton VCF parser which can print variants in VCF output.

Pull Request - State: closed - Opened by joshuak94 almost 4 years ago

#45 - [FEATURE] Modularization of the methods for detecting junctions.

Pull Request - State: closed - Opened by Irallia almost 4 years ago

#45 - [FEATURE] Modularization of the methods for detecting junctions.

Pull Request - State: closed - Opened by Irallia almost 4 years ago

#44 - iGenVar - Modularisation of iGenVar

Issue - State: closed - Opened by Irallia almost 4 years ago
Labels: Epic

#44 - iGenVar - Modularisation of iGenVar

Issue - State: closed - Opened by Irallia almost 4 years ago
Labels: Epic

#43 - [FEATURE] Modularize input data

Issue - State: closed - Opened by Irallia almost 4 years ago

#43 - [FEATURE] Modularize input data

Issue - State: closed - Opened by Irallia almost 4 years ago

#42 - [FEATURE] Modularize methods for refining breakends

Issue - State: closed - Opened by Irallia almost 4 years ago

#42 - [FEATURE] Modularize methods for refining breakends

Issue - State: closed - Opened by Irallia almost 4 years ago

#41 - [FEATURE] Modularize methods for clustering junctions

Issue - State: closed - Opened by Irallia almost 4 years ago

#41 - [FEATURE] Modularize methods for clustering junctions

Issue - State: closed - Opened by Irallia almost 4 years ago

#40 - [FEATURE] Modularize methods for detecting junctions

Issue - State: closed - Opened by Irallia almost 4 years ago

#40 - [FEATURE] Modularize methods for detecting junctions

Issue - State: closed - Opened by Irallia almost 4 years ago

#39 - Add overload function for output to std::cout. Remove mandatory requi…

Pull Request - State: closed - Opened by joshuak94 almost 4 years ago

#39 - Add overload function for output to std::cout. Remove mandatory requi…

Pull Request - State: closed - Opened by joshuak94 almost 4 years ago

#36 - [FEATURE EPIC] Call SNPs, Indels & SVs with iGenVar

Issue - State: open - Opened by Irallia about 4 years ago
Labels: Epic

#36 - [FEATURE EPIC] Call SNPs, Indels & SVs with iGenVar

Issue - State: open - Opened by Irallia about 4 years ago
Labels: Epic

#35 - [INFRA] Delete app-template example code

Pull Request - State: closed - Opened by Irallia about 4 years ago

#35 - [INFRA] Delete app-template example code

Pull Request - State: closed - Opened by Irallia about 4 years ago

#34 - [TEST] Add better test data for detect_breakends

Pull Request - State: closed - Opened by Irallia about 4 years ago

#34 - [TEST] Add better test data for detect_breakends

Pull Request - State: closed - Opened by Irallia about 4 years ago

#33 - [BUG,TEST] Empty output file in detect_breakends cli test.

Issue - State: closed - Opened by Irallia about 4 years ago

#33 - [BUG,TEST] Empty output file in detect_breakends cli test.

Issue - State: closed - Opened by Irallia about 4 years ago

#32 - iGenVar - Call Deletions from long reads

Issue - State: closed - Opened by Irallia about 4 years ago
Labels: Epic

#32 - iGenVar - Call Deletions from long reads

Issue - State: closed - Opened by Irallia about 4 years ago
Labels: Epic

#31 - iGenVar - Find SNPs & Indels modeled on GATK

Issue - State: closed - Opened by Irallia about 4 years ago
Labels: Epic

#31 - iGenVar - Find SNPs & Indels modeled on GATK

Issue - State: closed - Opened by Irallia about 4 years ago
Labels: Epic

#30 - iGenVar - Write API & CLI tests for all functions

Issue - State: closed - Opened by Irallia about 4 years ago - 2 comments
Labels: Epic

#30 - iGenVar - Write API & CLI tests for all functions

Issue - State: closed - Opened by Irallia about 4 years ago - 2 comments
Labels: Epic

#29 - iGenVar - Add / Use a VCF format parser from SeqAn3

Issue - State: closed - Opened by Irallia over 4 years ago - 1 comment
Labels: Epic

#28 - Extend the deletion calling to consider split alignments

Issue - State: closed - Opened by Irallia over 4 years ago - 1 comment

#27 - [FEATURE] Call SVs in short reads via the CIGAR string and SA tag

Issue - State: closed - Opened by Irallia over 4 years ago - 1 comment

#26 - Cluster Deletions

Issue - State: closed - Opened by Irallia over 4 years ago - 1 comment

#25 - [FEATURE] Call Deletions in long reads via the CIGAR string

Issue - State: closed - Opened by Irallia over 4 years ago - 2 comments

#24 - iGenVar - General issues as errors and bits and pieces

Issue - State: open - Opened by Irallia about 4 years ago
Labels: Epic

#24 - iGenVar - General issues as errors and bits and pieces

Issue - State: open - Opened by Irallia about 4 years ago
Labels: Epic

#23 - [BUG] detect_breakends writes to `err` even if no error occurred.

Issue - State: open - Opened by simonsasse about 4 years ago - 1 comment

#23 - [BUG] detect_breakends writes to `err` even if no error occurred.

Issue - State: open - Opened by simonsasse about 4 years ago - 1 comment

#22 - [TEST] Add CLI tests for find_deletions.

Pull Request - State: closed - Opened by simonsasse about 4 years ago

#22 - [TEST] Add CLI tests for find_deletions.

Pull Request - State: closed - Opened by simonsasse about 4 years ago

#21 - [FEATURE] Add output option to detect_breakends & find_deletions

Issue - State: closed - Opened by Irallia about 4 years ago

#21 - [FEATURE] Add output option to detect_breakends & find_deletions

Issue - State: closed - Opened by Irallia about 4 years ago

#20 - [FEATURE] Add verbose option to iGenVar

Issue - State: open - Opened by Irallia about 4 years ago

#20 - [FEATURE] Add verbose option to iGenVar

Issue - State: open - Opened by Irallia about 4 years ago

#19 - [TEST] Adding cli tests for detect_breakends.

Pull Request - State: closed - Opened by simonsasse about 4 years ago - 2 comments

#19 - [TEST] Adding cli tests for detect_breakends.

Pull Request - State: closed - Opened by simonsasse about 4 years ago - 2 comments

#18 - [FEATURE] Extend deletion calling by using split alignment.

Issue - State: closed - Opened by Irallia about 4 years ago

#18 - [FEATURE] Extend deletion calling by using split alignment.

Issue - State: closed - Opened by Irallia about 4 years ago

#17 - iGenVar - Call SVs in short reads

Issue - State: open - Opened by Irallia about 4 years ago
Labels: Epic

#17 - iGenVar - Call SVs in short reads

Issue - State: open - Opened by Irallia about 4 years ago
Labels: Epic

#16 - [FEATURE] Find Deletions in short reads

Issue - State: closed - Opened by Irallia about 4 years ago

#16 - [FEATURE] Find Deletions in short reads

Issue - State: closed - Opened by Irallia about 4 years ago

#14 - [EPIC, FEATURE]Find SNPs & Indels modeled on GATK

Issue - State: closed - Opened by Irallia about 4 years ago - 1 comment

#14 - [EPIC, FEATURE]Find SNPs & Indels modeled on GATK

Issue - State: closed - Opened by Irallia about 4 years ago - 1 comment

#12 - [TEST] Write API tests for functions in iGenVar (methods)

Issue - State: closed - Opened by Irallia about 4 years ago

#12 - [TEST] Write API tests for functions in iGenVar (methods)

Issue - State: closed - Opened by Irallia about 4 years ago

#10 - [FEATURE] SeqAn3: Develop info fields of the VCF parser.

Issue - State: closed - Opened by Irallia about 4 years ago

#9 - [FEATURE] SeqAn3: Develop a simple VCF parser.

Issue - State: closed - Opened by Irallia about 4 years ago

#8 - [FEATURE] Save find_deletions output in a file

Issue - State: closed - Opened by Irallia about 4 years ago

#7 - iGenVar - Cluster SVs (deletions)

Issue - State: open - Opened by Irallia about 4 years ago
Labels: Epic

#6 - [FEATURE] Decouple detect_breackends output from functions

Issue - State: closed - Opened by Irallia about 4 years ago - 1 comment
Labels: question

#5 - [INFRA] Delete app-template example code

Issue - State: closed - Opened by Irallia about 4 years ago
Labels: good first issue

#4 - [TEST] Add cli tests

Issue - State: closed - Opened by Irallia about 4 years ago - 1 comment
Labels: good first issue

#3 - [DOC]Document code

Issue - State: closed - Opened by Irallia about 4 years ago
Labels: documentation

#2 - [DOC] document code

Pull Request - State: closed - Opened by Irallia about 4 years ago - 2 comments
Labels: documentation

#1 - [INFRA] Merge the https://github.com/seqan/app-template/ into iGenVar.

Pull Request - State: closed - Opened by Irallia over 4 years ago