Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / MannLabs/alphabase issues and pull requests

#137 - FEAT sage reader

Pull Request - State: closed - Opened by GeorgWa 9 months ago - 1 comment

#136 - Add option to specify own config file

Pull Request - State: closed - Opened by ammarcsj 10 months ago - 6 comments

#135 - Development

Pull Request - State: closed - Opened by jalew188 10 months ago

#134 - FIX bugfix in fixed mods

Pull Request - State: closed - Opened by GeorgWa 10 months ago

#133 - feat: optimized specLib flattening

Pull Request - State: closed - Opened by mo-sameh 10 months ago

#132 - Optimize spec lib flattening

Pull Request - State: closed - Opened by mo-sameh 10 months ago - 1 comment

#131 - Handling of non amino-acid FASTA characters

Issue - State: closed - Opened by GeorgWa 11 months ago - 3 comments

#130 - Development

Pull Request - State: closed - Opened by jalew188 11 months ago - 2 comments

#129 - feat: optimized flatten_fragments fn

Pull Request - State: closed - Opened by mo-sameh 11 months ago - 5 comments

#128 - Bump version: 1.1.2 → 1.2.0

Pull Request - State: closed - Opened by jalew188 11 months ago

#127 - FIX https://github.com/MannLabs/alphapeptdeep/issues/119; FIX adding fix mods

Pull Request - State: closed - Opened by jalew188 11 months ago - 1 comment

#126 - Release 1.1.2

Pull Request - State: closed - Opened by GeorgWa 11 months ago - 1 comment

#125 - CHORE updated class diagram

Pull Request - State: closed - Opened by GeorgWa 11 months ago

#124 - Add msfragger quantconfig

Pull Request - State: closed - Opened by ammarcsj 12 months ago - 1 comment

#123 - Use multiprocessing for decoy generation

Pull Request - State: closed - Opened by GeorgWa 12 months ago - 1 comment

#121 - FIX #120 tracing mono in calc_precursor_isotope_intensity()

Pull Request - State: closed - Opened by jalew188 about 1 year ago - 1 comment

#120 - Adjust isotope distribution if first isotope isn't the monoisotopic intensity

Issue - State: closed - Opened by GeorgWa about 1 year ago - 2 comments

#119 - Use multiprocessing for decoy generation

Issue - State: closed - Opened by GeorgWa about 1 year ago - 1 comment

#118 - Allow Fixed Terminal Modifications

Issue - State: closed - Opened by GeorgWa about 1 year ago - 1 comment

#117 - Release v1.1.1

Pull Request - State: closed - Opened by GeorgWa about 1 year ago - 1 comment

#116 - Prepare release

Pull Request - State: closed - Opened by GeorgWa about 1 year ago - 1 comment

#115 - Handle mod translation failure gracefully

Pull Request - State: closed - Opened by GeorgWa about 1 year ago - 1 comment

#114 - include mac OS M1 runner

Pull Request - State: closed - Opened by GeorgWa about 1 year ago

#113 - Updated modification handling

Pull Request - State: closed - Opened by GeorgWa about 1 year ago - 1 comment

#112 - annotate precursor df with FASTA

Pull Request - State: closed - Opened by GeorgWa about 1 year ago - 2 comments

#110 - Development

Pull Request - State: closed - Opened by jalew188 about 1 year ago - 1 comment

#109 - Quant table reader

Pull Request - State: closed - Opened by ammarcsj over 1 year ago - 1 comment

#108 - resolve unexpected behaviour

Pull Request - State: closed - Opened by GeorgWa over 1 year ago

#107 - Development

Pull Request - State: closed - Opened by GeorgWa over 1 year ago - 1 comment

#106 - Increase layout width for better display of long names

Pull Request - State: closed - Opened by GeorgWa over 1 year ago

#105 - Quant table reader

Pull Request - State: closed - Opened by ammarcsj over 1 year ago - 1 comment

#104 - Calculate isotope intensity distribution using multiprocessing

Pull Request - State: closed - Opened by GeorgWa over 1 year ago - 1 comment

#103 - Handle two columns with same name in dataframe validation

Issue - State: closed - Opened by GeorgWa over 1 year ago - 2 comments
Labels: bug

#102 - count and filter by frag count, close #93

Pull Request - State: closed - Opened by GeorgWa over 1 year ago - 1 comment

#101 - Validation of pandas dataframes close #96

Pull Request - State: closed - Opened by GeorgWa over 1 year ago - 1 comment

#100 - New dtype

Pull Request - State: closed - Opened by jalew188 over 1 year ago - 2 comments

#99 - add possibility to redefine path where tempmmap arrays are saved

Pull Request - State: closed - Opened by sophiamaedler over 1 year ago - 1 comment

#98 - Costumizing mz/intensity dtypes

Issue - State: closed - Opened by jalew188 over 1 year ago
Labels: enhancement

#97 - Include testcase for unexpected modifications in the library reader

Issue - State: closed - Opened by GeorgWa over 1 year ago
Labels: documentation

#96 - Include dataframe validation schema

Issue - State: closed - Opened by GeorgWa over 1 year ago
Labels: enhancement

#95 - Update isotope calculation

Issue - State: closed - Opened by GeorgWa over 1 year ago
Labels: enhancement

#94 - SpecLib function to filter fragments by number of allowed fragments

Issue - State: closed - Opened by GeorgWa over 1 year ago - 1 comment
Labels: enhancement

#93 - SpecLib function to count number of fragments per precursor

Issue - State: closed - Opened by GeorgWa over 1 year ago
Labels: enhancement

#92 - calc_precursor_mz leads to unexpected behavior

Issue - State: closed - Opened by GeorgWa over 1 year ago - 2 comments
Labels: bug

#91 - Updated Library Handling

Pull Request - State: closed - Opened by GeorgWa over 1 year ago - 2 comments

#90 - Updated Spectral Library Handling

Pull Request - State: closed - Opened by GeorgWa over 1 year ago - 1 comment

#88 - Development

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#86 - remove is_pd_dataframe attr for DataFrame in hdf

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 2 comments

#85 - msfragger pepxml reader support for c-term modifications

Pull Request - State: closed - Opened by yangkl96 almost 2 years ago

#84 - use flat_frag_start/stop_idx other than frag_start/stop_idx for flatten fragments

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 12 comments

#83 - modloss_importance in modification.tsv

Issue - State: closed - Opened by yangkl96 almost 2 years ago - 2 comments

#82 - fix for N-term mods

Pull Request - State: closed - Opened by yangkl96 almost 2 years ago - 4 comments

#81 - flexible frag representation to add frags

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#80 - mmh3 installation error

Issue - State: closed - Opened by jalew188 almost 2 years ago - 1 comment
Labels: enhancement

#79 - replace mmh3 with xxhash

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#77 - CHORE: prot decoy

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#76 - rename methods; tutorials for dev

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#75 - Development

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#74 - Development

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#73 - readme

Pull Request - State: closed - Opened by jalew188 almost 2 years ago

#72 - Python=3.9 workspace

Pull Request - State: closed - Opened by jalew188 almost 2 years ago

#71 - Development

Pull Request - State: closed - Opened by jalew188 almost 2 years ago

#70 - v1.0.0

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#69 - Uniformly distributed kernels for LOESS regression

Pull Request - State: closed - Opened by GeorgWa almost 2 years ago - 2 comments

#68 - DiaNN-like supervised Percolator

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#67 - v0.4.0

Pull Request - State: closed - Opened by jalew188 almost 2 years ago

#66 - frag_end_idx->frag_stop_idx

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#65 - Development

Pull Request - State: closed - Opened by jalew188 almost 2 years ago

#64 - Development

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#63 - Development

Pull Request - State: closed - Opened by jalew188 almost 2 years ago

#62 - msgfplus rescoring support or AlphaPeptDeep format example

Issue - State: closed - Opened by gsaxena888 almost 2 years ago - 4 comments
Labels: enhancement

#61 - Development

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#60 - Aligning spectral library names

Pull Request - State: closed - Opened by GeorgWa almost 2 years ago - 1 comment

#59 - Development

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#58 - add nbdev_test to github actions

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#57 - Reannotate fragments

Pull Request - State: closed - Opened by GeorgWa almost 2 years ago - 2 comments

#56 - Sphinx doc

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 2 comments

#55 - Reannotate precursors with fragments from different speclib

Pull Request - State: closed - Opened by GeorgWa almost 2 years ago - 3 comments

#54 - GeorgW Diann decoy fix

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#53 - Flat lib

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 5 comments

#52 - Georg w decoy fix

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#51 - rescore

Pull Request - State: closed - Opened by jalew188 almost 2 years ago - 1 comment

#49 - fix #48 diann decoylib bug

Pull Request - State: closed - Opened by GeorgWa almost 2 years ago - 3 comments

#48 - DiaNNDecoyLib decoy generation fails with Selenocystein

Issue - State: closed - Opened by GeorgWa almost 2 years ago - 1 comment
Labels: bug

#47 - added fragment handling functionality

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

#46 - Translate AB's library format into other library formats (e.g. tsv)

Pull Request - State: closed - Opened by jalew188 about 2 years ago - 1 comment

#45 - Translate AB's library format into other library formats (e.g. tsv)

Pull Request - State: closed - Opened by jalew188 about 2 years ago - 1 comment

#44 - updated weight function

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

#43 - Scoring

Pull Request - State: closed - Opened by jalew188 about 2 years ago - 3 comments

#42 - LOESS Regression fails with few datapoints

Issue - State: closed - Opened by GeorgWa about 2 years ago

#41 - LOESS Regression

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

#40 - Development

Pull Request - State: closed - Opened by jalew188 about 2 years ago - 1 comment

#39 - Development

Pull Request - State: closed - Opened by jalew188 about 2 years ago - 1 comment

#38 - Development

Pull Request - State: closed - Opened by jalew188 about 2 years ago - 1 comment

#37 - Development

Pull Request - State: closed - Opened by jalew188 about 2 years ago - 1 comment

#35 - Development

Pull Request - State: closed - Opened by jalew188 over 2 years ago - 1 comment

#34 - Development

Pull Request - State: closed - Opened by jalew188 over 2 years ago - 1 comment